1. Load Libraries

2. load seurat object

#Load Seurat Object L7
load("../0-robj/5-Harmony_Integrated_All_samples_Merged_CD4Tcells_final_Resolution_Selected_0.8_ADT_Normalized_cleaned_mt.robj")


All_samples_Merged
An object of class Seurat 
62900 features across 49305 samples within 6 assays 
Active assay: SCT (26176 features, 3000 variable features)
 3 layers present: counts, data, scale.data
 5 other assays present: RNA, ADT, prediction.score.celltype.l1, prediction.score.celltype.l2, prediction.score.celltype.l3
 5 dimensional reductions calculated: integrated_dr, ref.umap, pca, umap, harmony

3. Set Up Identifiers for Clustering

# Assign cluster identities to the Seurat object
Idents(All_samples_Merged) <- "seurat_clusters"

DimPlot(All_samples_Merged, reduction = "umap", group.by = "cell_line",label = T, label.box = T)

DimPlot(All_samples_Merged, reduction = "umap", group.by = "seurat_clusters",label = T, label.box = T)

4. Differential Expression Analysis

4.1 Using MAST with SCT and Latent Variables (cell_line)

# Load necessary libraries
library(Seurat)

# Set the identities to cell line vs. control
Idents(All_samples_Merged) <- "cell_line"

# Define the control group and the list of cell lines
control_group <- c("PBMC", "PBMC_10x")
cell_lines <- c("L1", "L2", "L3", "L4", "L5", "L6", "L7")

# Create an empty list to store DE results
de_results <- list()

# Run MAST for each cell line vs. control and save results to CSV
for (cell_line in cell_lines) {
  # Run MAST with "orig.ident" as a covariate (e.g., batch or patient)
  de_results[[cell_line]] <- FindMarkers(
    object = All_samples_Merged,
    ident.1 = cell_line,
    ident.2 = control_group,
    test.use = "MAST",
    logfc.threshold = 0,
    min.pct = 0.01,
    latent.vars = c("cell_line")  # Adjust for batch/patient effect
  )
  
  # Save the results to CSV
  output_file <- paste0("DE_Results_", cell_line, "_vs_Control.csv")
  write.csv(de_results[[cell_line]], output_file, row.names = TRUE)
}
Avis : sparse->dense coercion: allocating vector of size 1.4 GiBAvis : Dropping illegal slot(s) norm.method for class BayesGLMlike.  
                    This likely indicates a bug in an upstream package.Avis : Coefficients cell_linePBMC_10x are never estimible and will be dropped.
 Completed [----------------------------------------------------------------------------------------------]   0% with 0 failures
 Completed [----------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  17% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  33% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  50% with 0 failures
 Completed [==============================================>-----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  67% with 0 failures
 Completed [==============================================================>-------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  83% with 0 failures
 Completed [=============================================================================>----------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  86% with 0 failures
 Completed [================================================================================>-------------]  86% with 0 failures
 Completed [================================================================================>-------------]  87% with 0 failures
 Completed [=================================================================================>------------]  87% with 0 failures
 Completed [=================================================================================>------------]  88% with 0 failures
 Completed [==================================================================================>-----------]  88% with 0 failures
 Completed [==================================================================================>-----------]  89% with 0 failures
 Completed [===================================================================================>----------]  89% with 0 failures
 Completed [===================================================================================>----------]  90% with 0 failures
 Completed [====================================================================================>---------]  90% with 0 failures
 Completed [====================================================================================>---------]  91% with 0 failures
 Completed [=====================================================================================>--------]  91% with 0 failures
 Completed [=====================================================================================>--------]  92% with 0 failures
 Completed [======================================================================================>-------]  92% with 0 failures
 Completed [======================================================================================>-------]  93% with 0 failures
 Completed [=======================================================================================>------]  93% with 0 failures
 Completed [=======================================================================================>------]  94% with 0 failures
 Completed [========================================================================================>-----]  94% with 0 failures
 Completed [========================================================================================>-----]  95% with 0 failures
 Completed [=========================================================================================>----]  95% with 0 failures
 Completed [=========================================================================================>----]  96% with 0 failures
 Completed [==========================================================================================>---]  96% with 0 failures
 Completed [==========================================================================================>---]  97% with 0 failures
 Completed [===========================================================================================>--]  97% with 0 failures
 Completed [===========================================================================================>--]  98% with 0 failures
 Completed [============================================================================================>-]  98% with 0 failures
 Completed [============================================================================================>-]  99% with 0 failures
 Completed [=============================================================================================>]  99% with 0 failures
 Completed [=============================================================================================>] 100% with 0 failures
 Completed [==============================================================================================] 100% with 0 failures
                                                                                                                                

Done!
Combining coefficients and standard errors
Calculating log-fold changes
Calculating likelihood ratio tests
Refitting on reduced model...

 Completed [----------------------------------------------------------------------------------------------]   0% with 0 failures
 Completed [----------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  17% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  33% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  50% with 0 failures
 Completed [==============================================>-----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  67% with 0 failures
 Completed [==============================================================>-------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  83% with 0 failures
 Completed [=============================================================================>----------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  86% with 0 failures
 Completed [================================================================================>-------------]  86% with 0 failures
 Completed [================================================================================>-------------]  87% with 0 failures
 Completed [=================================================================================>------------]  87% with 0 failures
 Completed [=================================================================================>------------]  88% with 0 failures
 Completed [==================================================================================>-----------]  88% with 0 failures
 Completed [==================================================================================>-----------]  89% with 0 failures
 Completed [===================================================================================>----------]  89% with 0 failures
 Completed [===================================================================================>----------]  90% with 0 failures
 Completed [====================================================================================>---------]  90% with 0 failures
 Completed [====================================================================================>---------]  91% with 0 failures
 Completed [=====================================================================================>--------]  91% with 0 failures
 Completed [=====================================================================================>--------]  92% with 0 failures
 Completed [======================================================================================>-------]  92% with 0 failures
 Completed [======================================================================================>-------]  93% with 0 failures
 Completed [=======================================================================================>------]  93% with 0 failures
 Completed [=======================================================================================>------]  94% with 0 failures
 Completed [========================================================================================>-----]  94% with 0 failures
 Completed [========================================================================================>-----]  95% with 0 failures
 Completed [=========================================================================================>----]  95% with 0 failures
 Completed [=========================================================================================>----]  96% with 0 failures
 Completed [==========================================================================================>---]  96% with 0 failures
 Completed [==========================================================================================>---]  97% with 0 failures
 Completed [===========================================================================================>--]  97% with 0 failures
 Completed [===========================================================================================>--]  98% with 0 failures
 Completed [============================================================================================>-]  98% with 0 failures
 Completed [============================================================================================>-]  99% with 0 failures
 Completed [=============================================================================================>]  99% with 0 failures
 Completed [=============================================================================================>] 100% with 0 failures
 Completed [==============================================================================================] 100% with 0 failures
                                                                                                                                

Done!
Avis : sparse->dense coercion: allocating vector of size 1.5 GiBAvis : Dropping illegal slot(s) norm.method for class BayesGLMlike.  
                    This likely indicates a bug in an upstream package.Avis : Coefficients cell_linePBMC_10x are never estimible and will be dropped.
 Completed [----------------------------------------------------------------------------------------------]   0% with 0 failures
 Completed [----------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  17% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  33% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  50% with 0 failures
 Completed [==============================================>-----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  67% with 0 failures
 Completed [==============================================================>-------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  83% with 0 failures
 Completed [=============================================================================>----------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  86% with 0 failures
 Completed [================================================================================>-------------]  86% with 0 failures
 Completed [================================================================================>-------------]  87% with 0 failures
 Completed [=================================================================================>------------]  87% with 0 failures
 Completed [=================================================================================>------------]  88% with 0 failures
 Completed [==================================================================================>-----------]  88% with 0 failures
 Completed [==================================================================================>-----------]  89% with 0 failures
 Completed [===================================================================================>----------]  89% with 0 failures
 Completed [===================================================================================>----------]  90% with 0 failures
 Completed [====================================================================================>---------]  90% with 0 failures
 Completed [====================================================================================>---------]  91% with 0 failures
 Completed [=====================================================================================>--------]  91% with 0 failures
 Completed [=====================================================================================>--------]  92% with 0 failures
 Completed [======================================================================================>-------]  92% with 0 failures
 Completed [======================================================================================>-------]  93% with 0 failures
 Completed [=======================================================================================>------]  93% with 0 failures
 Completed [=======================================================================================>------]  94% with 0 failures
 Completed [========================================================================================>-----]  94% with 0 failures
 Completed [========================================================================================>-----]  95% with 0 failures
 Completed [=========================================================================================>----]  95% with 0 failures
 Completed [=========================================================================================>----]  96% with 0 failures
 Completed [==========================================================================================>---]  96% with 0 failures
 Completed [==========================================================================================>---]  97% with 0 failures
 Completed [===========================================================================================>--]  97% with 0 failures
 Completed [===========================================================================================>--]  98% with 0 failures
 Completed [============================================================================================>-]  98% with 0 failures
 Completed [============================================================================================>-]  99% with 0 failures
 Completed [=============================================================================================>]  99% with 0 failures
 Completed [=============================================================================================>] 100% with 0 failures
 Completed [==============================================================================================] 100% with 0 failures
                                                                                                                                

Done!
Combining coefficients and standard errors
Calculating log-fold changes
Calculating likelihood ratio tests
Refitting on reduced model...

 Completed [----------------------------------------------------------------------------------------------]   0% with 0 failures
 Completed [----------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  17% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  33% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  50% with 0 failures
 Completed [==============================================>-----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  67% with 0 failures
 Completed [==============================================================>-------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  83% with 0 failures
 Completed [=============================================================================>----------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  86% with 0 failures
 Completed [================================================================================>-------------]  86% with 0 failures
 Completed [================================================================================>-------------]  87% with 0 failures
 Completed [=================================================================================>------------]  87% with 0 failures
 Completed [=================================================================================>------------]  88% with 0 failures
 Completed [==================================================================================>-----------]  88% with 0 failures
 Completed [==================================================================================>-----------]  89% with 0 failures
 Completed [===================================================================================>----------]  89% with 0 failures
 Completed [===================================================================================>----------]  90% with 0 failures
 Completed [====================================================================================>---------]  90% with 0 failures
 Completed [====================================================================================>---------]  91% with 0 failures
 Completed [=====================================================================================>--------]  91% with 0 failures
 Completed [=====================================================================================>--------]  92% with 0 failures
 Completed [======================================================================================>-------]  92% with 0 failures
 Completed [======================================================================================>-------]  93% with 0 failures
 Completed [=======================================================================================>------]  93% with 0 failures
 Completed [=======================================================================================>------]  94% with 0 failures
 Completed [========================================================================================>-----]  94% with 0 failures
 Completed [========================================================================================>-----]  95% with 0 failures
 Completed [=========================================================================================>----]  95% with 0 failures
 Completed [=========================================================================================>----]  96% with 0 failures
 Completed [==========================================================================================>---]  96% with 0 failures
 Completed [==========================================================================================>---]  97% with 0 failures
 Completed [===========================================================================================>--]  97% with 0 failures
 Completed [===========================================================================================>--]  98% with 0 failures
 Completed [============================================================================================>-]  98% with 0 failures
 Completed [============================================================================================>-]  99% with 0 failures
 Completed [=============================================================================================>]  99% with 0 failures
 Completed [=============================================================================================>] 100% with 0 failures
 Completed [==============================================================================================] 100% with 0 failures
                                                                                                                                

Done!
Avis : sparse->dense coercion: allocating vector of size 1.6 GiBAvis : Dropping illegal slot(s) norm.method for class BayesGLMlike.  
                    This likely indicates a bug in an upstream package.Avis : Coefficients cell_linePBMC_10x are never estimible and will be dropped.
 Completed [----------------------------------------------------------------------------------------------]   0% with 0 failures
 Completed [----------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  17% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  33% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  50% with 0 failures
 Completed [==============================================>-----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  67% with 0 failures
 Completed [==============================================================>-------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  83% with 0 failures
 Completed [=============================================================================>----------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  86% with 0 failures
 Completed [================================================================================>-------------]  86% with 0 failures
 Completed [================================================================================>-------------]  87% with 0 failures
 Completed [=================================================================================>------------]  87% with 0 failures
 Completed [=================================================================================>------------]  88% with 0 failures
 Completed [==================================================================================>-----------]  88% with 0 failures
 Completed [==================================================================================>-----------]  89% with 0 failures
 Completed [===================================================================================>----------]  89% with 0 failures
 Completed [===================================================================================>----------]  90% with 0 failures
 Completed [====================================================================================>---------]  90% with 0 failures
 Completed [====================================================================================>---------]  91% with 0 failures
 Completed [=====================================================================================>--------]  91% with 0 failures
 Completed [=====================================================================================>--------]  92% with 0 failures
 Completed [======================================================================================>-------]  92% with 0 failures
 Completed [======================================================================================>-------]  93% with 0 failures
 Completed [=======================================================================================>------]  93% with 0 failures
 Completed [=======================================================================================>------]  94% with 0 failures
 Completed [========================================================================================>-----]  94% with 0 failures
 Completed [========================================================================================>-----]  95% with 0 failures
 Completed [=========================================================================================>----]  95% with 0 failures
 Completed [=========================================================================================>----]  96% with 0 failures
 Completed [==========================================================================================>---]  96% with 0 failures
 Completed [==========================================================================================>---]  97% with 0 failures
 Completed [===========================================================================================>--]  97% with 0 failures
 Completed [===========================================================================================>--]  98% with 0 failures
 Completed [============================================================================================>-]  98% with 0 failures
 Completed [============================================================================================>-]  99% with 0 failures
 Completed [=============================================================================================>]  99% with 0 failures
 Completed [=============================================================================================>] 100% with 0 failures
 Completed [==============================================================================================] 100% with 0 failures
                                                                                                                                

Done!
Combining coefficients and standard errors
Calculating log-fold changes
Calculating likelihood ratio tests
Refitting on reduced model...

 Completed [----------------------------------------------------------------------------------------------]   0% with 0 failures
 Completed [----------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  17% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  33% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  50% with 0 failures
 Completed [==============================================>-----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  67% with 0 failures
 Completed [==============================================================>-------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  83% with 0 failures
 Completed [=============================================================================>----------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  86% with 0 failures
 Completed [================================================================================>-------------]  86% with 0 failures
 Completed [================================================================================>-------------]  87% with 0 failures
 Completed [=================================================================================>------------]  87% with 0 failures
 Completed [=================================================================================>------------]  88% with 0 failures
 Completed [==================================================================================>-----------]  88% with 0 failures
 Completed [==================================================================================>-----------]  89% with 0 failures
 Completed [===================================================================================>----------]  89% with 0 failures
 Completed [===================================================================================>----------]  90% with 0 failures
 Completed [====================================================================================>---------]  90% with 0 failures
 Completed [====================================================================================>---------]  91% with 0 failures
 Completed [=====================================================================================>--------]  91% with 0 failures
 Completed [=====================================================================================>--------]  92% with 0 failures
 Completed [======================================================================================>-------]  92% with 0 failures
 Completed [======================================================================================>-------]  93% with 0 failures
 Completed [=======================================================================================>------]  93% with 0 failures
 Completed [=======================================================================================>------]  94% with 0 failures
 Completed [========================================================================================>-----]  94% with 0 failures
 Completed [========================================================================================>-----]  95% with 0 failures
 Completed [=========================================================================================>----]  95% with 0 failures
 Completed [=========================================================================================>----]  96% with 0 failures
 Completed [==========================================================================================>---]  96% with 0 failures
 Completed [==========================================================================================>---]  97% with 0 failures
 Completed [===========================================================================================>--]  97% with 0 failures
 Completed [===========================================================================================>--]  98% with 0 failures
 Completed [============================================================================================>-]  98% with 0 failures
 Completed [============================================================================================>-]  99% with 0 failures
 Completed [=============================================================================================>]  99% with 0 failures
 Completed [=============================================================================================>] 100% with 0 failures
 Completed [==============================================================================================] 100% with 0 failures
                                                                                                                                

Done!
Avis : sparse->dense coercion: allocating vector of size 1.6 GiBAvis : Dropping illegal slot(s) norm.method for class BayesGLMlike.  
                    This likely indicates a bug in an upstream package.Avis : Coefficients cell_linePBMC_10x are never estimible and will be dropped.
 Completed [----------------------------------------------------------------------------------------------]   0% with 0 failures
 Completed [----------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  17% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  33% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  50% with 0 failures
 Completed [==============================================>-----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  67% with 0 failures
 Completed [==============================================================>-------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  83% with 0 failures
 Completed [=============================================================================>----------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  86% with 0 failures
 Completed [================================================================================>-------------]  86% with 0 failures
 Completed [================================================================================>-------------]  87% with 0 failures
 Completed [=================================================================================>------------]  87% with 0 failures
 Completed [=================================================================================>------------]  88% with 0 failures
 Completed [==================================================================================>-----------]  88% with 0 failures
 Completed [==================================================================================>-----------]  89% with 0 failures
 Completed [===================================================================================>----------]  89% with 0 failures
 Completed [===================================================================================>----------]  90% with 0 failures
 Completed [====================================================================================>---------]  90% with 0 failures
 Completed [====================================================================================>---------]  91% with 0 failures
 Completed [=====================================================================================>--------]  91% with 0 failures
 Completed [=====================================================================================>--------]  92% with 0 failures
 Completed [======================================================================================>-------]  92% with 0 failures
 Completed [======================================================================================>-------]  93% with 0 failures
 Completed [=======================================================================================>------]  93% with 0 failures
 Completed [=======================================================================================>------]  94% with 0 failures
 Completed [========================================================================================>-----]  94% with 0 failures
 Completed [========================================================================================>-----]  95% with 0 failures
 Completed [=========================================================================================>----]  95% with 0 failures
 Completed [=========================================================================================>----]  96% with 0 failures
 Completed [==========================================================================================>---]  96% with 0 failures
 Completed [==========================================================================================>---]  97% with 0 failures
 Completed [===========================================================================================>--]  97% with 0 failures
 Completed [===========================================================================================>--]  98% with 0 failures
 Completed [============================================================================================>-]  98% with 0 failures
 Completed [============================================================================================>-]  99% with 0 failures
 Completed [=============================================================================================>]  99% with 0 failures
 Completed [=============================================================================================>] 100% with 0 failures
 Completed [==============================================================================================] 100% with 0 failures
                                                                                                                                

Done!
Combining coefficients and standard errors
Calculating log-fold changes
Calculating likelihood ratio tests
Refitting on reduced model...

 Completed [----------------------------------------------------------------------------------------------]   0% with 0 failures
 Completed [----------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  17% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  33% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  50% with 0 failures
 Completed [==============================================>-----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  67% with 0 failures
 Completed [==============================================================>-------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  83% with 0 failures
 Completed [=============================================================================>----------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  86% with 0 failures
 Completed [================================================================================>-------------]  86% with 0 failures
 Completed [================================================================================>-------------]  87% with 0 failures
 Completed [=================================================================================>------------]  87% with 0 failures
 Completed [=================================================================================>------------]  88% with 0 failures
 Completed [==================================================================================>-----------]  88% with 0 failures
 Completed [==================================================================================>-----------]  89% with 0 failures
 Completed [===================================================================================>----------]  89% with 0 failures
 Completed [===================================================================================>----------]  90% with 0 failures
 Completed [====================================================================================>---------]  90% with 0 failures
 Completed [====================================================================================>---------]  91% with 0 failures
 Completed [=====================================================================================>--------]  91% with 0 failures
 Completed [=====================================================================================>--------]  92% with 0 failures
 Completed [======================================================================================>-------]  92% with 0 failures
 Completed [======================================================================================>-------]  93% with 0 failures
 Completed [=======================================================================================>------]  93% with 0 failures
 Completed [=======================================================================================>------]  94% with 0 failures
 Completed [========================================================================================>-----]  94% with 0 failures
 Completed [========================================================================================>-----]  95% with 0 failures
 Completed [=========================================================================================>----]  95% with 0 failures
 Completed [=========================================================================================>----]  96% with 0 failures
 Completed [==========================================================================================>---]  96% with 0 failures
 Completed [==========================================================================================>---]  97% with 0 failures
 Completed [===========================================================================================>--]  97% with 0 failures
 Completed [===========================================================================================>--]  98% with 0 failures
 Completed [============================================================================================>-]  98% with 0 failures
 Completed [============================================================================================>-]  99% with 0 failures
 Completed [=============================================================================================>]  99% with 0 failures
 Completed [=============================================================================================>] 100% with 0 failures
 Completed [==============================================================================================] 100% with 0 failures
                                                                                                                                

Done!
Avis : sparse->dense coercion: allocating vector of size 1.5 GiBAvis : Dropping illegal slot(s) norm.method for class BayesGLMlike.  
                    This likely indicates a bug in an upstream package.Avis : Coefficients cell_linePBMC_10x are never estimible and will be dropped.
 Completed [----------------------------------------------------------------------------------------------]   0% with 0 failures
 Completed [----------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  17% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  33% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  50% with 0 failures
 Completed [==============================================>-----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  67% with 0 failures
 Completed [==============================================================>-------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  83% with 0 failures
 Completed [=============================================================================>----------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  86% with 0 failures
 Completed [================================================================================>-------------]  86% with 0 failures
 Completed [================================================================================>-------------]  87% with 0 failures
 Completed [=================================================================================>------------]  87% with 0 failures
 Completed [=================================================================================>------------]  88% with 0 failures
 Completed [==================================================================================>-----------]  88% with 0 failures
 Completed [==================================================================================>-----------]  89% with 0 failures
 Completed [===================================================================================>----------]  89% with 0 failures
 Completed [===================================================================================>----------]  90% with 0 failures
 Completed [====================================================================================>---------]  90% with 0 failures
 Completed [====================================================================================>---------]  91% with 0 failures
 Completed [=====================================================================================>--------]  91% with 0 failures
 Completed [=====================================================================================>--------]  92% with 0 failures
 Completed [======================================================================================>-------]  92% with 0 failures
 Completed [======================================================================================>-------]  93% with 0 failures
 Completed [=======================================================================================>------]  93% with 0 failures
 Completed [=======================================================================================>------]  94% with 0 failures
 Completed [========================================================================================>-----]  94% with 0 failures
 Completed [========================================================================================>-----]  95% with 0 failures
 Completed [=========================================================================================>----]  95% with 0 failures
 Completed [=========================================================================================>----]  96% with 0 failures
 Completed [==========================================================================================>---]  96% with 0 failures
 Completed [==========================================================================================>---]  97% with 0 failures
 Completed [===========================================================================================>--]  97% with 0 failures
 Completed [===========================================================================================>--]  98% with 0 failures
 Completed [============================================================================================>-]  98% with 0 failures
 Completed [============================================================================================>-]  99% with 0 failures
 Completed [=============================================================================================>]  99% with 0 failures
 Completed [=============================================================================================>] 100% with 0 failures
 Completed [==============================================================================================] 100% with 0 failures
                                                                                                                                

Done!
Combining coefficients and standard errors
Calculating log-fold changes
Calculating likelihood ratio tests
Refitting on reduced model...

 Completed [----------------------------------------------------------------------------------------------]   0% with 0 failures
 Completed [----------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  17% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  33% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  50% with 0 failures
 Completed [==============================================>-----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  67% with 0 failures
 Completed [==============================================================>-------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  83% with 0 failures
 Completed [=============================================================================>----------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  86% with 0 failures
 Completed [================================================================================>-------------]  86% with 0 failures
 Completed [================================================================================>-------------]  87% with 0 failures
 Completed [=================================================================================>------------]  87% with 0 failures
 Completed [=================================================================================>------------]  88% with 0 failures
 Completed [==================================================================================>-----------]  88% with 0 failures
 Completed [==================================================================================>-----------]  89% with 0 failures
 Completed [===================================================================================>----------]  89% with 0 failures
 Completed [===================================================================================>----------]  90% with 0 failures
 Completed [====================================================================================>---------]  90% with 0 failures
 Completed [====================================================================================>---------]  91% with 0 failures
 Completed [=====================================================================================>--------]  91% with 0 failures
 Completed [=====================================================================================>--------]  92% with 0 failures
 Completed [======================================================================================>-------]  92% with 0 failures
 Completed [======================================================================================>-------]  93% with 0 failures
 Completed [=======================================================================================>------]  93% with 0 failures
 Completed [=======================================================================================>------]  94% with 0 failures
 Completed [========================================================================================>-----]  94% with 0 failures
 Completed [========================================================================================>-----]  95% with 0 failures
 Completed [=========================================================================================>----]  95% with 0 failures
 Completed [=========================================================================================>----]  96% with 0 failures
 Completed [==========================================================================================>---]  96% with 0 failures
 Completed [==========================================================================================>---]  97% with 0 failures
 Completed [===========================================================================================>--]  97% with 0 failures
 Completed [===========================================================================================>--]  98% with 0 failures
 Completed [============================================================================================>-]  98% with 0 failures
 Completed [============================================================================================>-]  99% with 0 failures
 Completed [=============================================================================================>]  99% with 0 failures
 Completed [=============================================================================================>] 100% with 0 failures
 Completed [==============================================================================================] 100% with 0 failures
                                                                                                                                

Done!
Avis : sparse->dense coercion: allocating vector of size 1.4 GiBAvis : Dropping illegal slot(s) norm.method for class BayesGLMlike.  
                    This likely indicates a bug in an upstream package.Avis : Coefficients cell_linePBMC_10x are never estimible and will be dropped.
 Completed [----------------------------------------------------------------------------------------------]   0% with 0 failures
 Completed [----------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  17% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  33% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  50% with 0 failures
 Completed [==============================================>-----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  67% with 0 failures
 Completed [==============================================================>-------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  83% with 0 failures
 Completed [=============================================================================>----------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  86% with 0 failures
 Completed [================================================================================>-------------]  86% with 0 failures
 Completed [================================================================================>-------------]  87% with 0 failures
 Completed [=================================================================================>------------]  87% with 0 failures
 Completed [=================================================================================>------------]  88% with 0 failures
 Completed [==================================================================================>-----------]  88% with 0 failures
 Completed [==================================================================================>-----------]  89% with 0 failures
 Completed [===================================================================================>----------]  89% with 0 failures
 Completed [===================================================================================>----------]  90% with 0 failures
 Completed [====================================================================================>---------]  90% with 0 failures
 Completed [====================================================================================>---------]  91% with 0 failures
 Completed [=====================================================================================>--------]  91% with 0 failures
 Completed [=====================================================================================>--------]  92% with 0 failures
 Completed [======================================================================================>-------]  92% with 0 failures
 Completed [======================================================================================>-------]  93% with 0 failures
 Completed [=======================================================================================>------]  93% with 0 failures
 Completed [=======================================================================================>------]  94% with 0 failures
 Completed [========================================================================================>-----]  94% with 0 failures
 Completed [========================================================================================>-----]  95% with 0 failures
 Completed [=========================================================================================>----]  95% with 0 failures
 Completed [=========================================================================================>----]  96% with 0 failures
 Completed [==========================================================================================>---]  96% with 0 failures
 Completed [==========================================================================================>---]  97% with 0 failures
 Completed [===========================================================================================>--]  97% with 0 failures
 Completed [===========================================================================================>--]  98% with 0 failures
 Completed [============================================================================================>-]  98% with 0 failures
 Completed [============================================================================================>-]  99% with 0 failures
 Completed [=============================================================================================>]  99% with 0 failures
 Completed [=============================================================================================>] 100% with 0 failures
 Completed [==============================================================================================] 100% with 0 failures
                                                                                                                                

Done!
Combining coefficients and standard errors
Calculating log-fold changes
Calculating likelihood ratio tests
Refitting on reduced model...

 Completed [----------------------------------------------------------------------------------------------]   0% with 0 failures
 Completed [----------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  17% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  33% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  50% with 0 failures
 Completed [==============================================>-----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  67% with 0 failures
 Completed [==============================================================>-------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  83% with 0 failures
 Completed [=============================================================================>----------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  86% with 0 failures
 Completed [================================================================================>-------------]  86% with 0 failures
 Completed [================================================================================>-------------]  87% with 0 failures
 Completed [=================================================================================>------------]  87% with 0 failures
 Completed [=================================================================================>------------]  88% with 0 failures
 Completed [==================================================================================>-----------]  88% with 0 failures
 Completed [==================================================================================>-----------]  89% with 0 failures
 Completed [===================================================================================>----------]  89% with 0 failures
 Completed [===================================================================================>----------]  90% with 0 failures
 Completed [====================================================================================>---------]  90% with 0 failures
 Completed [====================================================================================>---------]  91% with 0 failures
 Completed [=====================================================================================>--------]  91% with 0 failures
 Completed [=====================================================================================>--------]  92% with 0 failures
 Completed [======================================================================================>-------]  92% with 0 failures
 Completed [======================================================================================>-------]  93% with 0 failures
 Completed [=======================================================================================>------]  93% with 0 failures
 Completed [=======================================================================================>------]  94% with 0 failures
 Completed [========================================================================================>-----]  94% with 0 failures
 Completed [========================================================================================>-----]  95% with 0 failures
 Completed [=========================================================================================>----]  95% with 0 failures
 Completed [=========================================================================================>----]  96% with 0 failures
 Completed [==========================================================================================>---]  96% with 0 failures
 Completed [==========================================================================================>---]  97% with 0 failures
 Completed [===========================================================================================>--]  97% with 0 failures
 Completed [===========================================================================================>--]  98% with 0 failures
 Completed [============================================================================================>-]  98% with 0 failures
 Completed [============================================================================================>-]  99% with 0 failures
 Completed [=============================================================================================>]  99% with 0 failures
 Completed [=============================================================================================>] 100% with 0 failures
 Completed [==============================================================================================] 100% with 0 failures
                                                                                                                                

Done!
Avis : sparse->dense coercion: allocating vector of size 1.5 GiBAvis : Dropping illegal slot(s) norm.method for class BayesGLMlike.  
                    This likely indicates a bug in an upstream package.Avis : Coefficients cell_linePBMC_10x are never estimible and will be dropped.
 Completed [----------------------------------------------------------------------------------------------]   0% with 0 failures
 Completed [----------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  17% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  33% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  50% with 0 failures
 Completed [==============================================>-----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  67% with 0 failures
 Completed [==============================================================>-------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  83% with 0 failures
 Completed [=============================================================================>----------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  86% with 0 failures
 Completed [================================================================================>-------------]  86% with 0 failures
 Completed [================================================================================>-------------]  87% with 0 failures
 Completed [=================================================================================>------------]  87% with 0 failures
 Completed [=================================================================================>------------]  88% with 0 failures
 Completed [==================================================================================>-----------]  88% with 0 failures
 Completed [==================================================================================>-----------]  89% with 0 failures
 Completed [===================================================================================>----------]  89% with 0 failures
 Completed [===================================================================================>----------]  90% with 0 failures
 Completed [====================================================================================>---------]  90% with 0 failures
 Completed [====================================================================================>---------]  91% with 0 failures
 Completed [=====================================================================================>--------]  91% with 0 failures
 Completed [=====================================================================================>--------]  92% with 0 failures
 Completed [======================================================================================>-------]  92% with 0 failures
 Completed [======================================================================================>-------]  93% with 0 failures
 Completed [=======================================================================================>------]  93% with 0 failures
 Completed [=======================================================================================>------]  94% with 0 failures
 Completed [========================================================================================>-----]  94% with 0 failures
 Completed [========================================================================================>-----]  95% with 0 failures
 Completed [=========================================================================================>----]  95% with 0 failures
 Completed [=========================================================================================>----]  96% with 0 failures
 Completed [==========================================================================================>---]  96% with 0 failures
 Completed [==========================================================================================>---]  97% with 0 failures
 Completed [===========================================================================================>--]  97% with 0 failures
 Completed [===========================================================================================>--]  98% with 0 failures
 Completed [============================================================================================>-]  98% with 0 failures
 Completed [============================================================================================>-]  99% with 0 failures
 Completed [=============================================================================================>]  99% with 0 failures
 Completed [=============================================================================================>] 100% with 0 failures
 Completed [==============================================================================================] 100% with 0 failures
                                                                                                                                

Done!
Combining coefficients and standard errors
Calculating log-fold changes
Calculating likelihood ratio tests
Refitting on reduced model...

 Completed [----------------------------------------------------------------------------------------------]   0% with 0 failures
 Completed [----------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   1% with 0 failures
 Completed [>---------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   2% with 0 failures
 Completed [=>--------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   3% with 0 failures
 Completed [==>-------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   4% with 0 failures
 Completed [===>------------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   5% with 0 failures
 Completed [====>-----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   6% with 0 failures
 Completed [=====>----------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   7% with 0 failures
 Completed [======>---------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   8% with 0 failures
 Completed [=======>--------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]   9% with 0 failures
 Completed [========>-------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  10% with 0 failures
 Completed [=========>------------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  11% with 0 failures
 Completed [==========>-----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  12% with 0 failures
 Completed [===========>----------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  13% with 0 failures
 Completed [============>---------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  14% with 0 failures
 Completed [=============>--------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  15% with 0 failures
 Completed [==============>-------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  16% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  17% with 0 failures
 Completed [===============>------------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  18% with 0 failures
 Completed [================>-----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  19% with 0 failures
 Completed [=================>----------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  20% with 0 failures
 Completed [==================>---------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  21% with 0 failures
 Completed [===================>--------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  22% with 0 failures
 Completed [====================>-------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  23% with 0 failures
 Completed [=====================>------------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  24% with 0 failures
 Completed [======================>-----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  25% with 0 failures
 Completed [=======================>----------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  26% with 0 failures
 Completed [========================>---------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  27% with 0 failures
 Completed [=========================>--------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  28% with 0 failures
 Completed [==========================>-------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  29% with 0 failures
 Completed [===========================>------------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  30% with 0 failures
 Completed [============================>-----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  31% with 0 failures
 Completed [=============================>----------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  32% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  33% with 0 failures
 Completed [==============================>---------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  34% with 0 failures
 Completed [===============================>--------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  35% with 0 failures
 Completed [================================>-------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  36% with 0 failures
 Completed [=================================>------------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  37% with 0 failures
 Completed [==================================>-----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  38% with 0 failures
 Completed [===================================>----------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  39% with 0 failures
 Completed [====================================>---------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  40% with 0 failures
 Completed [=====================================>--------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  41% with 0 failures
 Completed [======================================>-------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  42% with 0 failures
 Completed [=======================================>------------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  43% with 0 failures
 Completed [========================================>-----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  44% with 0 failures
 Completed [=========================================>----------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  45% with 0 failures
 Completed [==========================================>---------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  46% with 0 failures
 Completed [===========================================>--------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  47% with 0 failures
 Completed [============================================>-------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  48% with 0 failures
 Completed [=============================================>------------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  49% with 0 failures
 Completed [==============================================>-----------------------------------------------]  50% with 0 failures
 Completed [==============================================>-----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  51% with 0 failures
 Completed [===============================================>----------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  52% with 0 failures
 Completed [================================================>---------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  53% with 0 failures
 Completed [=================================================>--------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  54% with 0 failures
 Completed [==================================================>-------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  55% with 0 failures
 Completed [===================================================>------------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  56% with 0 failures
 Completed [====================================================>-----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  57% with 0 failures
 Completed [=====================================================>----------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  58% with 0 failures
 Completed [======================================================>---------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  59% with 0 failures
 Completed [=======================================================>--------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  60% with 0 failures
 Completed [========================================================>-------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  61% with 0 failures
 Completed [=========================================================>------------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  62% with 0 failures
 Completed [==========================================================>-----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  63% with 0 failures
 Completed [===========================================================>----------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  64% with 0 failures
 Completed [============================================================>---------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  65% with 0 failures
 Completed [=============================================================>--------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  66% with 0 failures
 Completed [==============================================================>-------------------------------]  67% with 0 failures
 Completed [==============================================================>-------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  68% with 0 failures
 Completed [===============================================================>------------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  69% with 0 failures
 Completed [================================================================>-----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  70% with 0 failures
 Completed [=================================================================>----------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  71% with 0 failures
 Completed [==================================================================>---------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  72% with 0 failures
 Completed [===================================================================>--------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  73% with 0 failures
 Completed [====================================================================>-------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  74% with 0 failures
 Completed [=====================================================================>------------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  75% with 0 failures
 Completed [======================================================================>-----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  76% with 0 failures
 Completed [=======================================================================>----------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  77% with 0 failures
 Completed [========================================================================>---------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  78% with 0 failures
 Completed [=========================================================================>--------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  79% with 0 failures
 Completed [==========================================================================>-------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  80% with 0 failures
 Completed [===========================================================================>------------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  81% with 0 failures
 Completed [============================================================================>-----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  82% with 0 failures
 Completed [=============================================================================>----------------]  83% with 0 failures
 Completed [=============================================================================>----------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  84% with 0 failures
 Completed [==============================================================================>---------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  85% with 0 failures
 Completed [===============================================================================>--------------]  86% with 0 failures
 Completed [================================================================================>-------------]  86% with 0 failures
 Completed [================================================================================>-------------]  87% with 0 failures
 Completed [=================================================================================>------------]  87% with 0 failures
 Completed [=================================================================================>------------]  88% with 0 failures
 Completed [==================================================================================>-----------]  88% with 0 failures
 Completed [==================================================================================>-----------]  89% with 0 failures
 Completed [===================================================================================>----------]  89% with 0 failures
 Completed [===================================================================================>----------]  90% with 0 failures
 Completed [====================================================================================>---------]  90% with 0 failures
 Completed [====================================================================================>---------]  91% with 0 failures
 Completed [=====================================================================================>--------]  91% with 0 failures
 Completed [=====================================================================================>--------]  92% with 0 failures
 Completed [======================================================================================>-------]  92% with 0 failures
 Completed [======================================================================================>-------]  93% with 0 failures
 Completed [=======================================================================================>------]  93% with 0 failures
 Completed [=======================================================================================>------]  94% with 0 failures
 Completed [========================================================================================>-----]  94% with 0 failures
 Completed [========================================================================================>-----]  95% with 0 failures
 Completed [=========================================================================================>----]  95% with 0 failures
 Completed [=========================================================================================>----]  96% with 0 failures
 Completed [==========================================================================================>---]  96% with 0 failures
 Completed [==========================================================================================>---]  97% with 0 failures
 Completed [===========================================================================================>--]  97% with 0 failures
 Completed [===========================================================================================>--]  98% with 0 failures
 Completed [============================================================================================>-]  98% with 0 failures
 Completed [============================================================================================>-]  99% with 0 failures
 Completed [=============================================================================================>]  99% with 0 failures
 Completed [=============================================================================================>] 100% with 0 failures
 Completed [==============================================================================================] 100% with 0 failures
                                                                                                                                

Done!
# Check one of the results
head(de_results[["L1"]])
NA

5. Compute Mean Expression for Groups

# Load necessary libraries
library(Seurat)
library(dplyr)
library(tibble)

# Define the control group and the list of cell lines
control_group <- c("PBMC", "PBMC_10x")
cell_lines <- c("L1", "L2", "L3", "L4", "L5", "L6", "L7")

# Extract normalized expression values for SCT assay
expression_data_SCT <- GetAssayData(All_samples_Merged, assay = "SCT", slot = "data")  # SCT-normalized counts
Avis : The `slot` argument of `GetAssayData()` is deprecated as of SeuratObject 5.0.0.
Please use the `layer` argument instead.
# Function to calculate mean expression for each group
calculate_mean_expression <- function(markers, group1_cells, group2_cells, expression_data) {
  # Calculate mean expression for each group
  group1_mean <- rowMeans(expression_data[, group1_cells, drop = FALSE], na.rm = TRUE)
  group2_mean <- rowMeans(expression_data[, group2_cells, drop = FALSE], na.rm = TRUE)
  
  # Append mean expression to markers dataframe
  markers <- markers %>%
    rownames_to_column("gene") %>%
    mutate(mean_expr_group1 = group1_mean[gene],
           mean_expr_group2 = group2_mean[gene])
  
  return(markers)
}

# Loop through each cell line to compute and save mean expression
for (cell_line in cell_lines) {
  
  # Load the existing DE results for this cell line
  existing_results <- de_results[[cell_line]]
  
  # Define cell groups for mean expression calculation
  group1_cells <- WhichCells(All_samples_Merged, idents = cell_line)  # Malignant CD4+ T cells
  group2_cells <- WhichCells(All_samples_Merged, idents = control_group)  # Normal CD4+ T cells
  
  # Calculate mean expression for SCT assay
  updated_results <- calculate_mean_expression(existing_results, group1_cells, group2_cells, expression_data_SCT)
  
  # Save the updated results to CSV
  output_file <- paste0("Updated_DE_Results_", cell_line, "_with_MeanExpr.csv")
  write.csv(updated_results, output_file, row.names = TRUE)
}

# Check one of the updated results
head(de_results[["L1"]])
NA

6. Summarize Results

6.1 Summary Function

summarize_markers <- function(markers) {
  num_pval0 <- sum(markers$p_val_adj == 0)
  num_pval1 <- sum(markers$p_val_adj == 1)
  num_significant <- sum(markers$p_val_adj < 0.05)
  num_upregulated <- sum(markers$avg_log2FC > 1)
  num_downregulated <- sum(markers$avg_log2FC < -1)
  
  cat("Number of genes with p_val_adj = 0:", num_pval0, "\n")
  cat("Number of genes with p_val_adj = 1:", num_pval1, "\n")
  cat("Number of significant genes (p_val_adj < 0.05):", num_significant, "\n")
  cat("Number of upregulated genes (avg_log2FC > 1):", num_upregulated, "\n")
  cat("Number of downregulated genes (avg_log2FC < -1):", num_downregulated, "\n")
}

Summarize Markers (L1)

cat("Markers1 Summary (L1):\n")
Markers1 Summary (L1):
summarize_markers(de_results$L1)
Number of genes with p_val_adj = 0: 1843 
Number of genes with p_val_adj = 1: 2080 
Number of significant genes (p_val_adj < 0.05): 10996 
Number of upregulated genes (avg_log2FC > 1): 7752 
Number of downregulated genes (avg_log2FC < -1): 1190 

Summarize Markers (L2)

cat("Markers1 Summary (L2):\n")
Markers1 Summary (L2):
summarize_markers(de_results$L2)
Number of genes with p_val_adj = 0: 3000 
Number of genes with p_val_adj = 1: 1647 
Number of significant genes (p_val_adj < 0.05): 12057 
Number of upregulated genes (avg_log2FC > 1): 9648 
Number of downregulated genes (avg_log2FC < -1): 1160 

Summarize Markers (L3)

cat("Markers1 Summary (L3):\n")
Markers1 Summary (L3):
summarize_markers(de_results$L3)
Number of genes with p_val_adj = 0: 2162 
Number of genes with p_val_adj = 1: 2327 
Number of significant genes (p_val_adj < 0.05): 11284 
Number of upregulated genes (avg_log2FC > 1): 7293 
Number of downregulated genes (avg_log2FC < -1): 1780 

Summarize Markers (L4)

cat("Markers1 Summary (L4):\n")
Markers1 Summary (L4):
summarize_markers(de_results$L4)
Number of genes with p_val_adj = 0: 3253 
Number of genes with p_val_adj = 1: 1598 
Number of significant genes (p_val_adj < 0.05): 12909 
Number of upregulated genes (avg_log2FC > 1): 10493 
Number of downregulated genes (avg_log2FC < -1): 1088 

Summarize Markers (L5)

cat("Markers1 Summary (L5):\n")
Markers1 Summary (L5):
summarize_markers(de_results$L5)
Number of genes with p_val_adj = 0: 2682 
Number of genes with p_val_adj = 1: 1970 
Number of significant genes (p_val_adj < 0.05): 11812 
Number of upregulated genes (avg_log2FC > 1): 8553 
Number of downregulated genes (avg_log2FC < -1): 1477 

Summarize Markers (L6)

cat("Markers1 Summary (L6):\n")
Markers1 Summary (L6):
summarize_markers(de_results$L6)
Number of genes with p_val_adj = 0: 1999 
Number of genes with p_val_adj = 1: 2230 
Number of significant genes (p_val_adj < 0.05): 11408 
Number of upregulated genes (avg_log2FC > 1): 8119 
Number of downregulated genes (avg_log2FC < -1): 1269 

Summarize Markers (L7)

cat("Markers1 Summary (L7):\n")
Markers1 Summary (L7):
summarize_markers(de_results$L7)
Number of genes with p_val_adj = 0: 2321 
Number of genes with p_val_adj = 1: 1819 
Number of significant genes (p_val_adj < 0.05): 11788 
Number of upregulated genes (avg_log2FC > 1): 8406 
Number of downregulated genes (avg_log2FC < -1): 1356 

7. Visualization

7.1 Volcano Plot for Cell lines with Normal Control


# Load necessary libraries
library(EnhancedVolcano)
library(ggplot2)

# Define a function to create and display volcano plots for each cell line
create_volcano_plot <- function(de_results, cell_line) {
  # Create volcano plot
  volcano <- EnhancedVolcano(de_results[[cell_line]],
                             lab = rownames(de_results[[cell_line]]),
                             x = "avg_log2FC",
                             y = "p_val_adj",
                             title = paste0(cell_line, " vs Normal CD4+ T Cells"),
                             pCutoff = 0.0001,
                             FCcutoff = 1.0)
  
  # Display the plot in the notebook
  print(volcano)
}

# Loop through each cell line and generate volcano plots
for (cell_line in cell_lines) {
  create_volcano_plot(de_results, cell_line)
}
Avis : One or more p-values is 0. Converting to 10^-1 * current lowest non-zero p-value...

7.2 Volcano Plot for Cell lines with Normal Control


# Load necessary libraries
library(EnhancedVolcano)
library(ggplot2)

# Define a function to create and display volcano plots for each cell line
create_volcano_plot <- function(de_results, cell_line) {
  # Create volcano plot
  volcano <- EnhancedVolcano(de_results[[cell_line]],
                lab = rownames(de_results[[cell_line]]),
                x = "avg_log2FC", 
                y = "p_val_adj",
                selectLab = c('KIR3DL2', 'TOX', 'TWIST1', 'CD52', 'CCR4', 'IL2RA', 'CD7', 'DPP4', 'CCR7', 'GATA3', 'FOXP3', 'DNM3', 'NCR1', 'CD70', 'AIRE', 'PDCD1 (PD-1)', 'CD274 (PD-L1)'),
                title = paste0(cell_line, " vs Normal CD4+ T Cells"),,
                xlab = bquote(~Log[2]~ 'fold change'),
                pCutoff = 0.0001,
                FCcutoff = 1, 
                pointSize = 3.0,
                labSize = 3.0,
                boxedLabels = TRUE,
                colAlpha = 0.5,
                legendPosition = 'right',
                legendLabSize = 10,
                legendIconSize = 4.0,
                drawConnectors = TRUE,
                widthConnectors = 0.5,
                colConnectors = 'black',
                arrowheads = FALSE,
                max.overlaps = 30)
  
  # Display the plot in the notebook
  print(volcano)
}

# Loop through each cell line and generate volcano plots
for (cell_line in cell_lines) {
  create_volcano_plot(de_results, cell_line)
}
Avis : One or more p-values is 0. Converting to 10^-1 * current lowest non-zero p-value...

---
title: "Cell lines vs Normal Control-DE-NewUMAP"
author: "Nasir Mahmood Abbasi"
date: "`r Sys.Date()`"
output:
  html_notebook:
    toc: yes
    toc_float: yes
    toc_collapsed: yes
  pdf_document:
    toc: yes
---

# 1. Load Libraries
```{r setup, include=FALSE}
library(Seurat)
library(harmony)
library(dplyr)
library(EnhancedVolcano)
library(ggplot2)
library(pheatmap)
library(tibble)
```


# 2. load seurat object
```{r load_seurat}
#Load Seurat Object L7
load("../0-robj/5-Harmony_Integrated_All_samples_Merged_CD4Tcells_final_Resolution_Selected_0.8_ADT_Normalized_cleaned_mt.robj")


All_samples_Merged
```

# 3. Set Up Identifiers for Clustering
```{r}
# Assign cluster identities to the Seurat object
Idents(All_samples_Merged) <- "seurat_clusters"

DimPlot(All_samples_Merged, reduction = "umap", group.by = "cell_line",label = T, label.box = T)
DimPlot(All_samples_Merged, reduction = "umap", group.by = "seurat_clusters",label = T, label.box = T)

```

# 4.  Differential Expression Analysis

## 4.1 Using MAST with SCT and Latent Variables (cell_line)
```{r}
# Load necessary libraries
library(Seurat)

# Set the identities to cell line vs. control
Idents(All_samples_Merged) <- "cell_line"

# Define the control group and the list of cell lines
control_group <- c("PBMC", "PBMC_10x")
cell_lines <- c("L1", "L2", "L3", "L4", "L5", "L6", "L7")

# Create an empty list to store DE results
de_results <- list()

# Run MAST for each cell line vs. control and save results to CSV
for (cell_line in cell_lines) {
  # Run MAST with "orig.ident" as a covariate (e.g., batch or patient)
  de_results[[cell_line]] <- FindMarkers(
    object = All_samples_Merged,
    ident.1 = cell_line,
    ident.2 = control_group,
    test.use = "MAST",
    logfc.threshold = 0,
    min.pct = 0.01,
    latent.vars = c("cell_line")  
  )
  
  # Save the results to CSV
  output_file <- paste0("DE_Results_", cell_line, "_vs_Control.csv")
  write.csv(de_results[[cell_line]], output_file, row.names = TRUE)
}

# Check one of the results
head(de_results[["L1"]])

```

# 5. Compute Mean Expression for Groups
```{r}
# Load necessary libraries
library(Seurat)
library(dplyr)
library(tibble)

# Define the control group and the list of cell lines
control_group <- c("PBMC", "PBMC_10x")
cell_lines <- c("L1", "L2", "L3", "L4", "L5", "L6", "L7")

# Extract normalized expression values for SCT assay
expression_data_SCT <- GetAssayData(All_samples_Merged, assay = "SCT", slot = "data")  # SCT-normalized counts

# Function to calculate mean expression for each group
calculate_mean_expression <- function(markers, group1_cells, group2_cells, expression_data) {
  # Calculate mean expression for each group
  group1_mean <- rowMeans(expression_data[, group1_cells, drop = FALSE], na.rm = TRUE)
  group2_mean <- rowMeans(expression_data[, group2_cells, drop = FALSE], na.rm = TRUE)
  
  # Append mean expression to markers dataframe
  markers <- markers %>%
    rownames_to_column("gene") %>%
    mutate(mean_expr_group1 = group1_mean[gene],
           mean_expr_group2 = group2_mean[gene])
  
  return(markers)
}

# Loop through each cell line to compute and save mean expression
for (cell_line in cell_lines) {
  
  # Load the existing DE results for this cell line
  existing_results <- de_results[[cell_line]]
  
  # Define cell groups for mean expression calculation
  group1_cells <- WhichCells(All_samples_Merged, idents = cell_line)  # Malignant CD4+ T cells
  group2_cells <- WhichCells(All_samples_Merged, idents = control_group)  # Normal CD4+ T cells
  
  # Calculate mean expression for SCT assay
  updated_results <- calculate_mean_expression(existing_results, group1_cells, group2_cells, expression_data_SCT)
  
  # Save the updated results to CSV
  output_file <- paste0("Updated_DE_Results_", cell_line, "_with_MeanExpr.csv")
  write.csv(updated_results, output_file, row.names = TRUE)
}

# Check one of the updated results
head(de_results[["L1"]])

```

# 6. Summarize Results

## 6.1 Summary Function
```{r}
summarize_markers <- function(markers) {
  num_pval0 <- sum(markers$p_val_adj == 0)
  num_pval1 <- sum(markers$p_val_adj == 1)
  num_significant <- sum(markers$p_val_adj < 0.05)
  num_upregulated <- sum(markers$avg_log2FC > 1)
  num_downregulated <- sum(markers$avg_log2FC < -1)
  
  cat("Number of genes with p_val_adj = 0:", num_pval0, "\n")
  cat("Number of genes with p_val_adj = 1:", num_pval1, "\n")
  cat("Number of significant genes (p_val_adj < 0.05):", num_significant, "\n")
  cat("Number of upregulated genes (avg_log2FC > 1):", num_upregulated, "\n")
  cat("Number of downregulated genes (avg_log2FC < -1):", num_downregulated, "\n")
}

```

##  Summarize Markers (L1)
```{r}
cat("Markers1 Summary (L1):\n")
summarize_markers(de_results$L1)

```
##  Summarize Markers (L2)
```{r}
cat("Markers1 Summary (L2):\n")
summarize_markers(de_results$L2)

```
##  Summarize Markers (L3)
```{r}
cat("Markers1 Summary (L3):\n")
summarize_markers(de_results$L3)

```
##  Summarize Markers (L4)
```{r}
cat("Markers1 Summary (L4):\n")
summarize_markers(de_results$L4)

```
##  Summarize Markers (L5)
```{r}
cat("Markers1 Summary (L5):\n")
summarize_markers(de_results$L5)

```
##  Summarize Markers (L6)
```{r}
cat("Markers1 Summary (L6):\n")
summarize_markers(de_results$L6)

```
##  Summarize Markers (L7)
```{r}
cat("Markers1 Summary (L7):\n")
summarize_markers(de_results$L7)

```


# 7. Visualization

## 7.1 Volcano Plot for Cell lines with Normal Control
```{r, fig.height=12, fig.width=12}

# Load necessary libraries
library(EnhancedVolcano)
library(ggplot2)

# Define a function to create and display volcano plots for each cell line
create_volcano_plot <- function(de_results, cell_line) {
  # Create volcano plot
  volcano <- EnhancedVolcano(de_results[[cell_line]],
                             lab = rownames(de_results[[cell_line]]),
                             x = "avg_log2FC",
                             y = "p_val_adj",
                             title = paste0(cell_line, " vs Normal CD4+ T Cells"),
                             pCutoff = 0.0001,
                             FCcutoff = 1.0)
  
  # Display the plot in the notebook
  print(volcano)
}

# Loop through each cell line and generate volcano plots
for (cell_line in cell_lines) {
  create_volcano_plot(de_results, cell_line)
}


```


## 7.2 Volcano Plot for Cell lines with Normal Control
```{r, fig.height=8, fig.width=10}

# Load necessary libraries
library(EnhancedVolcano)
library(ggplot2)

# Define a function to create and display volcano plots for each cell line
create_volcano_plot <- function(de_results, cell_line) {
  # Create volcano plot
  volcano <- EnhancedVolcano(de_results[[cell_line]],
                lab = rownames(de_results[[cell_line]]),
                x = "avg_log2FC", 
                y = "p_val_adj",
                selectLab = c('KIR3DL2', 'TOX', 'TWIST1', 'CD52', 'CCR4', 'IL2RA', 'CD7', 'DPP4', 'CCR7', 'GATA3', 'FOXP3', 'DNM3', 'NCR1', 'CD70', 'AIRE', 'PDCD1 (PD-1)', 'CD274 (PD-L1)'),
                title = paste0(cell_line, " vs Normal CD4+ T Cells"),,
                xlab = bquote(~Log[2]~ 'fold change'),
                pCutoff = 0.0001,
                FCcutoff = 1, 
                pointSize = 3.0,
                labSize = 3.0,
                boxedLabels = TRUE,
                colAlpha = 0.5,
                legendPosition = 'right',
                legendLabSize = 10,
                legendIconSize = 4.0,
                drawConnectors = TRUE,
                widthConnectors = 0.5,
                colConnectors = 'black',
                arrowheads = FALSE,
                max.overlaps = 30)
  
  # Display the plot in the notebook
  print(volcano)
}

# Loop through each cell line and generate volcano plots
for (cell_line in cell_lines) {
  create_volcano_plot(de_results, cell_line)
}


```



