01-download-data

#Project Summary

This project utilizes metabarcoding and the LrCOI marker to taxonomically identify zooplankton samples from Washington Ocean Acidification Center Cruises. Samples were collected from seven stations spread throughout Puget Sound in April, July, and September 2018-2020. Zooplankton samples were collected using a 200 um net towed vertically from 10 meters from the bottom of the water column to the surface. A 5 ml subsample (settled volume) of each sample was homogenized, dried, and subsampled before being sent off to Ohio State University for library prep and sequencing.

Pipeline

This is step 1 of my project workflow. In this step, I am organizing my fastq files and checking their hash values. I originally downloaded my data from a shared google drive folder onto my computer and then uploaded into RStudio. Originally, the fastq files were located in multiple layers of directories.

The URL for step 1 is located here: https://rpubs.com/HailaSchultz/download-data

The URL for step 2 is located here: https://rpubs.com/HailaSchultz/trim-primers

The URL for step 3 is located here: https://rpubs.com/HailaSchultz/filter-reads

The URL for step 4 is located here: https://rpubs.com/HailaSchultz/pair

Step 1

load packages

library(knitr)

Move files into one folder

move multiple files from multiple layers of directories into the data directory

cd ../data
find . -name '*.gz' -exec mv {} ../data/fastq-files/ \;

create checksums file for all fastq files in data folder

cd /Users/hailaschultz/GitHub/haila-ZoopMetabarcoding/data/
shasum ../data/fastq-files/*.gz > fastq_checksums.sha
cat fastq_checksums.sha

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## ab26eb0d6b123fe2a6f6f43f587ca20e621ce42b  ../data/fastq-files/2019JULP8VeA-COI-P1_S63_L001_R1_001.fastq.gz
## e3fc1c9597f920221308304ab38b07149284a90b  ../data/fastq-files/2019JULP8VeA-COI-P1_S63_L001_R2_001.fastq.gz
## 1d084c70a1f7360b766c46b47fd8d4fafcdfc0d2  ../data/fastq-files/2019SEPP12Ve-COI-48samples_S183_L001_R1_001.fastq.gz
## 86f233b1c6f8f6045cb782c47805f28de8deb41a  ../data/fastq-files/2019SEPP12Ve-COI-48samples_S183_L001_R2_001.fastq.gz
## f5e05d6f103c2fb0234e79e95a81792bea433b30  ../data/fastq-files/2019SEPP12VeA-COI-P1_S51_L001_R1_001.fastq.gz
## 7436d5d41ca3454e73007abe4b4b3893ee23a52b  ../data/fastq-files/2019SEPP12VeA-COI-P1_S51_L001_R2_001.fastq.gz
## 8d7bfd7d4f3037fae2286443801b9a1b6f84fa64  ../data/fastq-files/2019SEPP12VeB-COI-P1_S57_L001_R1_001.fastq.gz
## b71f3de7fbdc96b2aaf83dd5370319c0e50c84bf  ../data/fastq-files/2019SEPP12VeB-COI-P1_S57_L001_R2_001.fastq.gz
## 35c1e46493ad90ffe3567de92a32e8faa9fa109c  ../data/fastq-files/2019SEPP22VeA-COI-P1_S78_L001_R1_001.fastq.gz
## fcf5c46bc6fd77c9789565aa1a8d35dd36dc5f98  ../data/fastq-files/2019SEPP22VeA-COI-P1_S78_L001_R2_001.fastq.gz
## a6a5f41c4eaa0814d06ab0ea72106cf8bba54c30  ../data/fastq-files/2019SEPP22VeB-COI-P1_S6_L001_R1_001.fastq.gz
## 9195a4a949fa261ba34077052ced0307c07f1cf0  ../data/fastq-files/2019SEPP22VeB-COI-P1_S6_L001_R2_001.fastq.gz
## ac88a30fd1cee86e3f87e1a310ab9ac43068c574  ../data/fastq-files/2019SEPP28VeA-COI-P1_S27_L001_R1_001.fastq.gz
## cc55ff0e77196cf9c2516b4707c1b0783b862d4b  ../data/fastq-files/2019SEPP28VeA-COI-P1_S27_L001_R2_001.fastq.gz
## 1053798063f076d784d0d91307607baadba048c8  ../data/fastq-files/2019SEPP28VeB-COI-P1_S32_L001_R1_001.fastq.gz
## e56aafd85917600847171249ade2812af4b67474  ../data/fastq-files/2019SEPP28VeB-COI-P1_S32_L001_R2_001.fastq.gz
## f3065c0875af876d95d00ccaaf5a33ef67fec448  ../data/fastq-files/2019SEPP38Ve-COI-48samples_S186_L001_R1_001.fastq.gz
## 90007246bc301b47e2affa5fb8fa0a93c061a6f5  ../data/fastq-files/2019SEPP38Ve-COI-48samples_S186_L001_R2_001.fastq.gz
## a8592740592be2e4ea60737fea5b79c7177d6c9b  ../data/fastq-files/2019SEPP38VeA-COI-P1_S52_L001_R1_001.fastq.gz
## 1fdd13bcb5bb120f0d52172f27559739f277ec68  ../data/fastq-files/2019SEPP38VeA-COI-P1_S52_L001_R2_001.fastq.gz
## 0c5c4d8fb5b5e508665517d3be9b7b872af55ef0  ../data/fastq-files/2019SEPP38VeB-COI-P1_S58_L001_R1_001.fastq.gz
## 1dbbf9c15363122802682dac02474e3e0901a6f0  ../data/fastq-files/2019SEPP38VeB-COI-P1_S58_L001_R2_001.fastq.gz
## c1cd86c855a198ec8e82699d7ac4983bf6f99589  ../data/fastq-files/2019SEPP402Ve-COI-48samples_S187_L001_R1_001.fastq.gz
## 59f13ad4ed9662fb05428ed34a2e5d6b5a0e0081  ../data/fastq-files/2019SEPP402Ve-COI-48samples_S187_L001_R2_001.fastq.gz
## 5e6725531e88f0344d2b7638f3b9adfa3bafa866  ../data/fastq-files/2019SEPP402VeB-COI-P2_S79_L001_R1_001.fastq.gz
## 03f4a15269bca5f196a84ece54cf566e89eb6c60  ../data/fastq-files/2019SEPP402VeB-COI-P2_S79_L001_R2_001.fastq.gz
## 07552cbb7fb0f187343f2d2cad63f6b496e9523c  ../data/fastq-files/2019SEPP4Ve-COI-48samples_S180_L001_R1_001.fastq.gz
## 97070fc09536cccee42f7e069a0037574cd73533  ../data/fastq-files/2019SEPP4Ve-COI-48samples_S180_L001_R2_001.fastq.gz
## f6159f6e67f1e767769c43f40756e5fb383ae4ec  ../data/fastq-files/2019SEPP4VeA-COI-P1_S77_L001_R1_001.fastq.gz
## 83a70be234ecc83fd9eef43824e19e2e02394745  ../data/fastq-files/2019SEPP4VeA-COI-P1_S77_L001_R2_001.fastq.gz
## 997dec3e81c646828c975e98cf5e68659eefa8a3  ../data/fastq-files/2019SEPP8Ve-COI-48samples_S182_L001_R1_001.fastq.gz
## 8f9a052d310f3aa0540f0253f0623e71f07a172e  ../data/fastq-files/2019SEPP8Ve-COI-48samples_S182_L001_R2_001.fastq.gz
## 4d1b2bce11e2024cb104901055f84732034f392c  ../data/fastq-files/2019SEPP8VeA-COI-P1_S26_L001_R1_001.fastq.gz
## bed065ad0960caef402c21d3c8c702d8608e4b27  ../data/fastq-files/2019SEPP8VeA-COI-P1_S26_L001_R2_001.fastq.gz
## 48a55d013e6bf7edc9f5e62cafe224d5a3550c81  ../data/fastq-files/2019SEPP8VeB-COI-P1_S31_L001_R1_001.fastq.gz
## 6a590a2e438a323cb2eed2b93fd6b52e5256f2f2  ../data/fastq-files/2019SEPP8VeB-COI-P1_S31_L001_R2_001.fastq.gz
## 5b5f0da498b23ae64f6cefb4d5b6915762218084  ../data/fastq-files/2020JULP12VeA-COI-P2_S84_L001_R1_001.fastq.gz
## a7a870c2f4845e6a0ee2e70546b8fbf7454a97cf  ../data/fastq-files/2020JULP12VeA-COI-P2_S84_L001_R2_001.fastq.gz
## 7de4a463120e0fe5decc6ea43a1a36495489d76d  ../data/fastq-files/2020JULP12VeB-COI-59samples_S205_L001_R1_001.fastq.gz
## 8bf28abc178f58d688d411874d0e16ea80e2c5bb  ../data/fastq-files/2020JULP12VeB-COI-59samples_S205_L001_R2_001.fastq.gz
## da8a6f21fc1d0ab61e47acaedb26224f81785336  ../data/fastq-files/2020JULP22VeA-COI-P2_S108_L001_R1_001.fastq.gz
## 9cfcdee4eb43321473a5923dfe67a4cf651debc0  ../data/fastq-files/2020JULP22VeA-COI-P2_S108_L001_R2_001.fastq.gz
## 9f9881059d3d6f1bfb28c870d92390a96b5978c5  ../data/fastq-files/2020JULP28VeA-COI-P2_S110_L001_R1_001.fastq.gz
## cc0fd67d32adbf91ac343b6af4fe1131cd538743  ../data/fastq-files/2020JULP28VeA-COI-P2_S110_L001_R2_001.fastq.gz
## 253bd6e77f40e74102e5cb89df6f29351dc7cb6a  ../data/fastq-files/2020JULP38VeA-COI-P2_S86_L001_R1_001.fastq.gz
## db4a3dcd71fecb956926dd2df4d67ddb9091ca64  ../data/fastq-files/2020JULP38VeA-COI-P2_S86_L001_R2_001.fastq.gz
## 6bbf0205149a3fefe5f5fbd2dea455c45b63a442  ../data/fastq-files/2020JULP38VeB-COI-59samples_S209_L001_R1_001.fastq.gz
## cb97ec9656e6a70edcde8e5935f473410c579b8d  ../data/fastq-files/2020JULP38VeB-COI-59samples_S209_L001_R2_001.fastq.gz
## c9c94c12930e95b4452efc16d0e36b7e2aae1544  ../data/fastq-files/2020JULP402VeA-COI-P2_S88_L001_R1_001.fastq.gz
## 3625457e11cb4d2bf10f4499b48550b682fac08e  ../data/fastq-files/2020JULP402VeA-COI-P2_S88_L001_R2_001.fastq.gz
## 8402123049b1c9207f57b22d28c162fad6c67ecd  ../data/fastq-files/2020JULP4VeA-COI-P2_S80_L001_R1_001.fastq.gz
## bbd7beec90fa874b91c6e0f77feca871b97313c2  ../data/fastq-files/2020JULP4VeA-COI-P2_S80_L001_R2_001.fastq.gz
## 0f7bf39e9d706a16450dc787e16c0648bc3bd3df  ../data/fastq-files/2020JULP4VeB-COI-59samples_S201_L001_R1_001.fastq.gz
## 92bf142cd720d509fdbda31fd7781c0a7e4a9e32  ../data/fastq-files/2020JULP4VeB-COI-59samples_S201_L001_R2_001.fastq.gz
## 5eb3334eea59a7f72dd4f780104d387b74a9160e  ../data/fastq-files/2020JULP8VeA-COI-P2_S82_L001_R1_001.fastq.gz
## c3375e4a2a8dff43de715bc33af626114eeedfc5  ../data/fastq-files/2020JULP8VeA-COI-P2_S82_L001_R2_001.fastq.gz
## 4a667b92c923225549f3ac569628825f47c0ff83  ../data/fastq-files/2020JULP8VeB-COI-59samples_S203_L001_R1_001.fastq.gz
## 1bf8697f5e6021170908cb7116e9f5a738744a8e  ../data/fastq-files/2020JULP8VeB-COI-59samples_S203_L001_R2_001.fastq.gz
## 51046b0eb572d6fc1281b2fa4d6b471b935a05e8  ../data/fastq-files/2020SEPP12VeA-COI-P2_S101_L001_R1_001.fastq.gz
## 3f1599a900a89a2c414edb6d24b1617d2d73ee50  ../data/fastq-files/2020SEPP12VeA-COI-P2_S101_L001_R2_001.fastq.gz
## d4a01cb4d9c9fef141bb933e83e59fda5dcbd3f5  ../data/fastq-files/2020SEPP22VeA-COI-P2_S103_L001_R1_001.fastq.gz
## 797ff085655e4ecbeecb1a5a5644aed5e42d11c6  ../data/fastq-files/2020SEPP22VeA-COI-P2_S103_L001_R2_001.fastq.gz
## 09a8df6a3850bc345108cbeddc33ae655e2553fe  ../data/fastq-files/2020SEPP28VeA-COI-P2_S105_L001_R1_001.fastq.gz
## f465bd0f463b651fec0ef5d5c60f9216bb21c48b  ../data/fastq-files/2020SEPP28VeA-COI-P2_S105_L001_R2_001.fastq.gz
## dda7ec17cd06d3c8dc55fe7598b1ed4632d3e648  ../data/fastq-files/2020SEPP38VeA-COI-P2_S107_L001_R1_001.fastq.gz
## 78b61993d2c21853210c8f39f0d36b533bc50112  ../data/fastq-files/2020SEPP38VeA-COI-P2_S107_L001_R2_001.fastq.gz
## ee6e271bd7bdaf554398656fac92d9ab007b19e8  ../data/fastq-files/2020SEPP402VeA-COI-P2_S120_L001_R1_001.fastq.gz
## 0d6142d34b6522495dec08684d27d137d4b7dcfc  ../data/fastq-files/2020SEPP402VeA-COI-P2_S120_L001_R2_001.fastq.gz
## 5f1977eabdbaccc24577d21c3697d39ffaf80dd5  ../data/fastq-files/2020SEPP4VeA-COI-P2_S116_L001_R1_001.fastq.gz
## 3ac154556fba1687eb743ac84e639971c6a6fbc3  ../data/fastq-files/2020SEPP4VeA-COI-P2_S116_L001_R2_001.fastq.gz
## 6669d07c50d681a5b7e6030d353eb889a8f940d4  ../data/fastq-files/2020SEPP8VeA-COI-P2_S118_L001_R1_001.fastq.gz
## b0c7c1f6996cdbd5bbe6ab5e387861d2ce4ff79f  ../data/fastq-files/2020SEPP8VeA-COI-P2_S118_L001_R2_001.fastq.gz
## 89ae7006127c93198970f6cc9e72dd9cd6d945ad  ../data/fastq-files/2020SepP12VeB-COI-59samples_S229_L001_R1_001.fastq.gz
## a4d78631354afdf3beba92cd5a0e671fa8064017  ../data/fastq-files/2020SepP12VeB-COI-59samples_S229_L001_R2_001.fastq.gz
## ca62283902d10ad5a34437026d60b05a2c66a87c  ../data/fastq-files/2020SepP22VeB-COI-59samples_S231_L001_R1_001.fastq.gz
## e89b7107999e9be24c74f8aad3900d4545cd0530  ../data/fastq-files/2020SepP22VeB-COI-59samples_S231_L001_R2_001.fastq.gz
## fcc365508957fd4bd16a8b67bfc11ec27a2129ef  ../data/fastq-files/2020SepP28VeB-COI-59samples_S233_L001_R1_001.fastq.gz
## 59ff5f770b5d29da13cf5c33a28a9e5e737ade0c  ../data/fastq-files/2020SepP28VeB-COI-59samples_S233_L001_R2_001.fastq.gz
## 62dda652bc6f972388e9a8df6a91f3732153b807  ../data/fastq-files/2020SepP38VeB-COI-59samples_S235_L001_R1_001.fastq.gz
## 1704d5499bca199215f7bdd0574349bff5c786e7  ../data/fastq-files/2020SepP38VeB-COI-59samples_S235_L001_R2_001.fastq.gz
## 968bd7ffd62077086a738ce1f50b65aeed7b4f9e  ../data/fastq-files/2020SepP402VeB-COI-59samples_S237_L001_R1_001.fastq.gz
## f8a21def6e3592e87a9d45f723f8809452d90f4c  ../data/fastq-files/2020SepP402VeB-COI-59samples_S237_L001_R2_001.fastq.gz
## de4ea85c6986dee256d920f12d441411de5be759  ../data/fastq-files/2020SepP4VeB-COI-59samples_S226_L001_R1_001.fastq.gz
## 894fa947f84c13231636f37d2db693688ff7ed9b  ../data/fastq-files/2020SepP4VeB-COI-59samples_S226_L001_R2_001.fastq.gz
## 55a817547b146678f3dc54cc2115220761516e1f  ../data/fastq-files/2020SepP8VeB-COI-59samples_S228_L001_R1_001.fastq.gz
## 6dcee9d863ad2a6e377e4f2d75b74f7e032a1eaa  ../data/fastq-files/2020SepP8VeB-COI-59samples_S228_L001_R2_001.fastq.gz

check if files match original

cd ../data
shasum -c fastq_checksums.sha

## ../data/fastq-files/2018APRP12Ve-COI-48samples_S145_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018APRP12Ve-COI-48samples_S145_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018APRP12VeA-COI-P1_S33_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018APRP12VeA-COI-P1_S33_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018APRP22Ve-COI-48samples_S146_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018APRP22Ve-COI-48samples_S146_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018APRP22VeA-COI-P1_S45_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018APRP22VeA-COI-P1_S45_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018APRP28Ve-COI-48samples_S147_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018APRP28Ve-COI-48samples_S147_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018APRP28VeA-COI-P1_S59_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018APRP28VeA-COI-P1_S59_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018APRP38Ve-COI-48samples_S149_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018APRP38Ve-COI-48samples_S149_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018APRP402Ve-COI-48samples_S150_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018APRP402Ve-COI-48samples_S150_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018APRP402VeA-COI-P1_S8_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018APRP402VeA-COI-P1_S8_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018APRP4Ve-COI-48samples_S142_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018APRP4Ve-COI-48samples_S142_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018APRP4VeA-COI-P1_S7_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018APRP4VeA-COI-P1_S7_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018APRP8Ve-COI-48samples_S144_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018APRP8Ve-COI-48samples_S144_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018APRP8VeA-COI-P1_S21_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018APRP8VeA-COI-P1_S21_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018JULP12Ve-COI-48samples_S154_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018JULP12Ve-COI-48samples_S154_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018JULP12VeA-COI-P1_S46_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018JULP12VeA-COI-P1_S46_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018JULP22Ve-COI-48samples_S155_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018JULP22Ve-COI-48samples_S155_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018JULP22VeA-COI-P1_S60_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018JULP22VeA-COI-P1_S60_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018JULP28Ve-COI-48samples_S156_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018JULP28Ve-COI-48samples_S156_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018JULP28VeA-COI-P1_S73_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018JULP28VeA-COI-P1_S73_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018JULP38Ve-COI-48samples_S157_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018JULP38Ve-COI-48samples_S157_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018JULP38VeA-COI-P1_S2_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018JULP38VeA-COI-P1_S2_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018JULP38VePS1807-P-12-COI-P2_S127_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018JULP38VePS1807-P-12-COI-P2_S127_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018JULP402VePS1807-P-014-COI-P2_S128_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018JULP402VePS1807-P-014-COI-P2_S128_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018JULP4Ve-COI-48samples_S151_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018JULP4Ve-COI-48samples_S151_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018JULP4VeA-COI-P1_S22_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018JULP4VeA-COI-P1_S22_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018JULP8Ve-COI-48samples_S153_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018JULP8Ve-COI-48samples_S153_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018JULP8VeA-COI-P1_S34_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018JULP8VeA-COI-P1_S34_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018SEPP12VePS1809-P-006-COI-P2_S133_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018SEPP12VePS1809-P-006-COI-P2_S133_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018SEPP22VePS1809-P-008r2-COI-P2_S135_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018SEPP22VePS1809-P-008r2-COI-P2_S135_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018SEPP28VePS1809-P-10-COI-P2_S137_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018SEPP28VePS1809-P-10-COI-P2_S137_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018SEPP38VePS1809-P-012r2-COI-P2_S139_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018SEPP38VePS1809-P-012r2-COI-P2_S139_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018SEPP402VePS1809-P-014r3-COI-P2_S141_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018SEPP402VePS1809-P-014r3-COI-P2_S141_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2018SEPP4VePS1809-P-002-COI-P2_S130_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2018SEPP4VePS1809-P-002-COI-P2_S130_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019APRP12Ve-COI-48samples_S164_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019APRP12Ve-COI-48samples_S164_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019APRP12VeA-COI-P1_S3_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019APRP12VeB-COI-P1_S10_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019APRP12VeB-COI-P1_S10_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019APRP22Ve-COI-48samples_S165_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019APRP22VeA-COI-P1_S29_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019APRP22VeA-COI-P1_S29_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019APRP22VeB-COI-P1_S35_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019APRP22VeB-COI-P1_S35_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019APRP28Ve-COI-48samples_S166_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019APRP28Ve-COI-48samples_S166_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019APRP28VeB-COI-P1_S62_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019APRP28VeB-COI-P1_S62_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019APRP38Ve-COI-48samples_S168_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019APRP38Ve-COI-48samples_S168_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019APRP38VeA-COI-P1_S4_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019APRP38VeA-COI-P1_S4_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019APRP38VeB-COI-P1_S11_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019APRP38VeB-COI-P1_S11_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019APRP4Ve-COI-48samples_S160_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019APRP4Ve-COI-48samples_S160_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019APRP8Ve-COI-48samples_S162_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019APRP8Ve-COI-48samples_S162_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019APRP8VeA-COI-P1_S53_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019APRP8VeA-COI-P1_S53_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019APRP8VeB-COI-P1_S61_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019APRP8VeB-COI-P1_S61_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019JULP12Ve-COI-48samples_S174_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019JULP12Ve-COI-48samples_S174_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019JULP12VeA-COI-P1_S5_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019JULP12VeA-COI-P1_S5_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019JULP22Ve-COI-48samples_S175_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019JULP22Ve-COI-48samples_S175_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019JULP22VeA-COI-P1_S18_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019JULP28Ve-COI-48samples_S176_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019JULP28Ve-COI-48samples_S176_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019JULP28VeA-COI-P1_S30_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019JULP28VeA-COI-P1_S30_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019JULP38Ve-COI-48samples_S178_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019JULP38Ve-COI-48samples_S178_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019JULP38VeA-COI-P1_S42_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019JULP38VeA-COI-P1_S42_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019JULP402Ve-COI-48samples_S179_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019JULP402Ve-COI-48samples_S179_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019JULP402VeA-COI-P1_S56_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019JULP402VeA-COI-P1_S56_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019JULP4Ve-COI-48samples_S171_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019JULP4Ve-COI-48samples_S171_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019JULP4VeA-COI-P1_S49_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019JULP4VeA-COI-P1_S49_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019JULP8Ve-COI-48samples_S173_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019JULP8Ve-COI-48samples_S173_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019JULP8VeA-COI-P1_S63_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019JULP8VeA-COI-P1_S63_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP12Ve-COI-48samples_S183_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP12Ve-COI-48samples_S183_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP12VeA-COI-P1_S51_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP12VeA-COI-P1_S51_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP12VeB-COI-P1_S57_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP12VeB-COI-P1_S57_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP22VeA-COI-P1_S78_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP22VeA-COI-P1_S78_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP22VeB-COI-P1_S6_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP22VeB-COI-P1_S6_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP28VeA-COI-P1_S27_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP28VeA-COI-P1_S27_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP28VeB-COI-P1_S32_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP28VeB-COI-P1_S32_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP38Ve-COI-48samples_S186_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP38Ve-COI-48samples_S186_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP38VeA-COI-P1_S52_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP38VeA-COI-P1_S52_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP38VeB-COI-P1_S58_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP38VeB-COI-P1_S58_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP402Ve-COI-48samples_S187_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP402Ve-COI-48samples_S187_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP402VeB-COI-P2_S79_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP402VeB-COI-P2_S79_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP4Ve-COI-48samples_S180_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP4Ve-COI-48samples_S180_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP4VeA-COI-P1_S77_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP4VeA-COI-P1_S77_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP8Ve-COI-48samples_S182_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP8Ve-COI-48samples_S182_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP8VeA-COI-P1_S26_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP8VeA-COI-P1_S26_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP8VeB-COI-P1_S31_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2019SEPP8VeB-COI-P1_S31_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020JULP12VeA-COI-P2_S84_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020JULP12VeA-COI-P2_S84_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020JULP12VeB-COI-59samples_S205_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020JULP12VeB-COI-59samples_S205_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020JULP22VeA-COI-P2_S108_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020JULP22VeA-COI-P2_S108_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020JULP28VeA-COI-P2_S110_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020JULP28VeA-COI-P2_S110_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020JULP38VeA-COI-P2_S86_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020JULP38VeA-COI-P2_S86_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020JULP38VeB-COI-59samples_S209_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020JULP38VeB-COI-59samples_S209_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020JULP402VeA-COI-P2_S88_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020JULP402VeA-COI-P2_S88_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020JULP4VeA-COI-P2_S80_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020JULP4VeA-COI-P2_S80_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020JULP4VeB-COI-59samples_S201_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020JULP4VeB-COI-59samples_S201_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020JULP8VeA-COI-P2_S82_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020JULP8VeA-COI-P2_S82_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020JULP8VeB-COI-59samples_S203_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020JULP8VeB-COI-59samples_S203_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020SEPP12VeA-COI-P2_S101_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020SEPP12VeA-COI-P2_S101_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020SEPP22VeA-COI-P2_S103_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020SEPP22VeA-COI-P2_S103_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020SEPP28VeA-COI-P2_S105_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020SEPP28VeA-COI-P2_S105_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020SEPP38VeA-COI-P2_S107_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020SEPP38VeA-COI-P2_S107_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020SEPP402VeA-COI-P2_S120_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020SEPP402VeA-COI-P2_S120_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020SEPP4VeA-COI-P2_S116_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020SEPP4VeA-COI-P2_S116_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020SEPP8VeA-COI-P2_S118_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020SEPP8VeA-COI-P2_S118_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020SepP12VeB-COI-59samples_S229_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020SepP12VeB-COI-59samples_S229_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020SepP22VeB-COI-59samples_S231_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020SepP22VeB-COI-59samples_S231_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020SepP28VeB-COI-59samples_S233_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020SepP28VeB-COI-59samples_S233_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020SepP38VeB-COI-59samples_S235_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020SepP38VeB-COI-59samples_S235_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020SepP402VeB-COI-59samples_S237_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020SepP402VeB-COI-59samples_S237_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020SepP4VeB-COI-59samples_S226_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020SepP4VeB-COI-59samples_S226_L001_R2_001.fastq.gz: OK
## ../data/fastq-files/2020SepP8VeB-COI-59samples_S228_L001_R1_001.fastq.gz: OK
## ../data/fastq-files/2020SepP8VeB-COI-59samples_S228_L001_R2_001.fastq.gz: OK