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Add default output dir for modules that create indices, updated (#336)

Browse source 
* Add default output dir for modules that create indices

* Change path for index module test output

* Fix bowtie2/align tests

* Fixing bowtie/align tests

* Fix genomegenerate test

* Fixing README linting
This commit is contained in:
Jose Espinosa-Carrasco 2021-03-23 18:55:01 +01:00 committed by GitHub
parent d6850f8312
commit ee90e7af77
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19 changed files with 93 additions and 94 deletions
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6
README.md
View file

@ -11,7 +11,7 @@
[![Follow on Twitter](http://img.shields.io/badge/twitter-%40nf__core-1DA1F2?labelColor=000000&logo=twitter)](https://twitter.com/nf_core)
[![Watch on YouTube](http://img.shields.io/badge/youtube-nf--core-FF0000?labelColor=000000&logo=youtube)](https://www.youtube.com/c/nf-core)
> THIS REPOSITORY IS UNDER ACTIVE DEVELOPMENT. SYNTAX, ORGANISATION AND LAYOUT MAY CHANGE WITHOUT NOTICE!
> THIS REPOSITORY IS UNDER ACTIVE DEVELOPMENT. SYNTAX, ORGANISATION AND LAYOUT MAY CHANGE WITHOUT NOTICE!
> PLEASE BE KIND TO OUR CODE REVIEWERS AND SUBMIT ONE PULL REQUEST PER MODULE :)
A repository for hosting [Nextflow DSL2](https://www.nextflow.io/docs/latest/dsl2.html) module files containing tool-specific process definitions and their associated documentation.
@ -42,7 +42,7 @@ We have written a helper command in the `nf-core/tools` package that uses the Gi
```console
$ nf-core modules list
,--./,-.
___ __ __ __ ___ /,-._.--~\
|\ | |__ __ / ` / \ |__) |__ } {
@ -306,7 +306,7 @@ In order to test that each module added to `nf-core/modules` is actually working
### Running tests manually
As outlined in the [nf-core modules create](#nf-core-modules-create) section we have made it quite trivial to create an initial yaml file (via the `nf-core modules create-test-yml` command) containing a listing of all of the module output files and their associated md5sums. However, md5sum checks may not be appropriate for all output files if for example they contain timestamps. This is why it is a good idea to re-run the tests locally with `pytest-workflow` before you create your pull request adding the module. If your files do indeed have timestamps or other issues that prevent you from using the md5sum check, then you can edit the `test.yml` file to instead check that the file contains some specific content or as a last resort, if it exists. The different test options are listed in the [pytest-workflow docs](https://pytest-workflow.readthedocs.io/en/stable/#test-options).
As outlined in the [nf-core modules create](#nf-core-modules-create) section we have made it quite trivial to create an initial yaml file (via the `nf-core modules create-test-yml` command) containing a listing of all of the module output files and their associated md5sums. However, md5sum checks may not be appropriate for all output files if for example they contain timestamps. This is why it is a good idea to re-run the tests locally with `pytest-workflow` before you create your pull request adding the module. If your files do indeed have timestamps or other issues that prevent you from using the md5sum check, then you can edit the `test.yml` file to instead check that the file contains some specific content or as a last resort, if it exists. The different test options are listed in the [pytest-workflow docs](https://pytest-workflow.readthedocs.io/en/stable/#test-options).
Please follow the steps below to run the tests locally:

2
software/bowtie/build/main.nf
View file

@ -9,7 +9,7 @@ process BOWTIE_BUILD {
label 'process_high'
publishDir "${params.outdir}",
mode: params.publish_dir_mode,
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:'') }
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:'index', publish_id:'') }
conda (params.enable_conda ? 'bioconda::bowtie=1.3.0' : null)
if (workflow.containerEngine == 'singularity' && !params.singularity_pull_docker_container) {

2
software/bowtie2/build/main.nf
View file

@ -9,7 +9,7 @@ process BOWTIE2_BUILD {
label 'process_high'
publishDir "${params.outdir}",
mode: params.publish_dir_mode,
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:'') }
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:'index', publish_id:'') }
conda (params.enable_conda ? 'bioconda::bowtie2=2.4.2' : null)
if (workflow.containerEngine == 'singularity' && !params.singularity_pull_docker_container) {

2
software/bwa/index/main.nf
View file

@ -9,7 +9,7 @@ process BWA_INDEX {
label 'process_high'
publishDir "${params.outdir}",
mode: params.publish_dir_mode,
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:'') }
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:'index', publish_id:'') }
conda (params.enable_conda ? "bioconda::bwa=0.7.17" : null)
if (workflow.containerEngine == 'singularity' && !params.singularity_pull_docker_container) {

2
software/bwamem2/index/main.nf
View file

@ -9,7 +9,7 @@ process BWAMEM2_INDEX {
label 'process_high'
publishDir "${params.outdir}",
mode: params.publish_dir_mode,
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:'') }
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:'index', publish_id:'') }
conda (params.enable_conda ? "bioconda::bwa-mem2=2.1" : null)
if (workflow.containerEngine == 'singularity' && !params.singularity_pull_docker_container) {

2
software/bwameth/index/main.nf
View file

@ -9,7 +9,7 @@ process BWAMETH_INDEX {
label 'process_high'
publishDir "${params.outdir}",
mode: params.publish_dir_mode,
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:'') }
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:'index', publish_id:'') }
conda (params.enable_conda ? "bioconda::bwameth=0.2.2" : null)
if (workflow.containerEngine == 'singularity' && !params.singularity_pull_docker_container) {

2
software/hisat2/build/main.nf
View file

@ -11,7 +11,7 @@ process HISAT2_BUILD {
label 'process_high'
publishDir "${params.outdir}",
mode: params.publish_dir_mode,
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:'') }
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:'index', publish_id:'') }
conda (params.enable_conda ? "bioconda::hisat2=2.2.0" : null)
if (workflow.containerEngine == 'singularity' && !params.singularity_pull_docker_container) {

2
software/rsem/preparereference/main.nf
View file

@ -9,7 +9,7 @@ process RSEM_PREPAREREFERENCE {
label 'process_high'
publishDir "${params.outdir}",
mode: params.publish_dir_mode,
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:'') }
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:'index', publish_id:'') }
conda (params.enable_conda ? "bioconda::rsem=1.3.3 bioconda::star=2.7.6a" : null)
if (workflow.containerEngine == 'singularity' && !params.singularity_pull_docker_container) {

2
software/salmon/index/main.nf
View file

@ -9,7 +9,7 @@ process SALMON_INDEX {
label "process_medium"
publishDir "${params.outdir}",
mode: params.publish_dir_mode,
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:'') }
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:'index', publish_id:'') }
conda (params.enable_conda ? "bioconda::salmon=1.4.0" : null)
if (workflow.containerEngine == 'singularity' && !params.singularity_pull_docker_container) {

2
software/star/genomegenerate/main.nf
View file

@ -9,7 +9,7 @@ process STAR_GENOMEGENERATE {
label 'process_high'
publishDir "${params.outdir}",
mode: params.publish_dir_mode,
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:'') }
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:'index', publish_id:'') }
// Note: 2.7X indices incompatible with AWS iGenomes.
conda (params.enable_conda ? "bioconda::star=2.6.1d" : null)

24
tests/software/bowtie/align/test.yml
View file

@ -8,17 +8,17 @@
- path: ./output/bowtie/test.bam
- path: ./output/bowtie/test.out
md5sum: 4b9140ceadb8a18ae9330885370f8a0b
- path: ./output/bowtie/bowtie/test_genome.3.ebwt
- path: ./output/index/bowtie/test_genome.3.ebwt
md5sum: 4ed93abba181d8dfab2e303e33114777
- path: ./output/bowtie/bowtie/test_genome.2.ebwt
- path: ./output/index/bowtie/test_genome.2.ebwt
md5sum: 02b44af9f94c62ecd3c583048e25d4cf
- path: ./output/bowtie/bowtie/test_genome.rev.2.ebwt
- path: ./output/index/bowtie/test_genome.rev.2.ebwt
md5sum: 9e6b0c4c1ddb99ae71ff8a4fe5ec6459
- path: ./output/bowtie/bowtie/test_genome.4.ebwt
- path: ./output/index/bowtie/test_genome.4.ebwt
md5sum: c25be5f8b0378abf7a58c8a880b87626
- path: ./output/bowtie/bowtie/test_genome.rev.1.ebwt
- path: ./output/index/bowtie/test_genome.rev.1.ebwt
md5sum: b37aaf11853e65a3b13561f27a912b06
- path: ./output/bowtie/bowtie/test_genome.1.ebwt
- path: ./output/index/bowtie/test_genome.1.ebwt
md5sum: d9b76ecf9fd0413240173273b38d8199
- name: bowtie align paired-end
@ -30,15 +30,15 @@
files:
- path: ./output/bowtie/test.bam
- path: ./output/bowtie/test.out
- path: ./output/bowtie/bowtie/test_genome.3.ebwt
- path: ./output/index/bowtie/test_genome.3.ebwt
md5sum: 4ed93abba181d8dfab2e303e33114777
- path: ./output/bowtie/bowtie/test_genome.2.ebwt
- path: ./output/index/bowtie/test_genome.2.ebwt
md5sum: 02b44af9f94c62ecd3c583048e25d4cf
- path: ./output/bowtie/bowtie/test_genome.rev.2.ebwt
- path: ./output/index/bowtie/test_genome.rev.2.ebwt
md5sum: 9e6b0c4c1ddb99ae71ff8a4fe5ec6459
- path: ./output/bowtie/bowtie/test_genome.4.ebwt
- path: ./output/index/bowtie/test_genome.4.ebwt
md5sum: c25be5f8b0378abf7a58c8a880b87626
- path: ./output/bowtie/bowtie/test_genome.rev.1.ebwt
- path: ./output/index/bowtie/test_genome.rev.1.ebwt
md5sum: b37aaf11853e65a3b13561f27a912b06
- path: ./output/bowtie/bowtie/test_genome.1.ebwt
- path: ./output/index/bowtie/test_genome.1.ebwt
md5sum: d9b76ecf9fd0413240173273b38d8199

12
tests/software/bowtie/build_test/test.yml
View file

@ -4,15 +4,15 @@
- bowtie
- bowtie_build
files:
- path: ./output/bowtie/bowtie/test_genome.3.ebwt
- path: ./output/index/bowtie/test_genome.3.ebwt
md5sum: 4ed93abba181d8dfab2e303e33114777
- path: ./output/bowtie/bowtie/test_genome.2.ebwt
- path: ./output/index/bowtie/test_genome.2.ebwt
md5sum: 02b44af9f94c62ecd3c583048e25d4cf
- path: ./output/bowtie/bowtie/test_genome.rev.2.ebwt
- path: ./output/index/bowtie/test_genome.rev.2.ebwt
md5sum: 9e6b0c4c1ddb99ae71ff8a4fe5ec6459
- path: ./output/bowtie/bowtie/test_genome.4.ebwt
- path: ./output/index/bowtie/test_genome.4.ebwt
md5sum: c25be5f8b0378abf7a58c8a880b87626
- path: ./output/bowtie/bowtie/test_genome.rev.1.ebwt
- path: ./output/index/bowtie/test_genome.rev.1.ebwt
md5sum: b37aaf11853e65a3b13561f27a912b06
- path: ./output/bowtie/bowtie/test_genome.1.ebwt
- path: ./output/index/bowtie/test_genome.1.ebwt
md5sum: d9b76ecf9fd0413240173273b38d8199

24
tests/software/bowtie2/align/test.yml
View file

@ -7,17 +7,17 @@
files:
- path: ./output/bowtie2/test.bam
- path: ./output/bowtie2/test.bowtie2.log
- path: ./output/bowtie2/bowtie2/test_genome.3.bt2
- path: ./output/index/bowtie2/test_genome.3.bt2
md5sum: 4ed93abba181d8dfab2e303e33114777
- path: ./output/bowtie2/bowtie2/test_genome.2.bt2
- path: ./output/index/bowtie2/test_genome.2.bt2
md5sum: 47b153cd1319abc88dda532462651fcf
- path: ./output/bowtie2/bowtie2/test_genome.1.bt2
- path: ./output/index/bowtie2/test_genome.1.bt2
md5sum: cbe3d0bbea55bc57c99b4bfa25b5fbdf
- path: ./output/bowtie2/bowtie2/test_genome.4.bt2
- path: ./output/index/bowtie2/test_genome.4.bt2
md5sum: c25be5f8b0378abf7a58c8a880b87626
- path: ./output/bowtie2/bowtie2/test_genome.rev.1.bt2
- path: ./output/index/bowtie2/test_genome.rev.1.bt2
md5sum: 52be6950579598a990570fbcf5372184
- path: ./output/bowtie2/bowtie2/test_genome.rev.2.bt2
- path: ./output/index/bowtie2/test_genome.rev.2.bt2
md5sum: e3b4ef343dea4dd571642010a7d09597
- name: bowtie2 align paired-end
@ -29,15 +29,15 @@
files:
- path: ./output/bowtie2/test.bam
- path: ./output/bowtie2/test.bowtie2.log
- path: ./output/bowtie2/bowtie2/test_genome.3.bt2
- path: ./output/index/bowtie2/test_genome.3.bt2
md5sum: 4ed93abba181d8dfab2e303e33114777
- path: ./output/bowtie2/bowtie2/test_genome.2.bt2
- path: ./output/index/bowtie2/test_genome.2.bt2
md5sum: 47b153cd1319abc88dda532462651fcf
- path: ./output/bowtie2/bowtie2/test_genome.1.bt2
- path: ./output/index/bowtie2/test_genome.1.bt2
md5sum: cbe3d0bbea55bc57c99b4bfa25b5fbdf
- path: ./output/bowtie2/bowtie2/test_genome.4.bt2
- path: ./output/index/bowtie2/test_genome.4.bt2
md5sum: c25be5f8b0378abf7a58c8a880b87626
- path: ./output/bowtie2/bowtie2/test_genome.rev.1.bt2
- path: ./output/index/bowtie2/test_genome.rev.1.bt2
md5sum: 52be6950579598a990570fbcf5372184
- path: ./output/bowtie2/bowtie2/test_genome.rev.2.bt2
- path: ./output/index/bowtie2/test_genome.rev.2.bt2
md5sum: e3b4ef343dea4dd571642010a7d09597

12
tests/software/bowtie2/build_test/test.yml
View file

@ -4,15 +4,15 @@
- bowtie2
- bowtie2_build
files:
- path: ./output/bowtie2/bowtie2/test_genome.3.bt2
- path: ./output/index/bowtie2/test_genome.3.bt2
md5sum: 4ed93abba181d8dfab2e303e33114777
- path: ./output/bowtie2/bowtie2/test_genome.2.bt2
- path: ./output/index/bowtie2/test_genome.2.bt2
md5sum: 47b153cd1319abc88dda532462651fcf
- path: ./output/bowtie2/bowtie2/test_genome.1.bt2
- path: ./output/index/bowtie2/test_genome.1.bt2
md5sum: cbe3d0bbea55bc57c99b4bfa25b5fbdf
- path: ./output/bowtie2/bowtie2/test_genome.4.bt2
- path: ./output/index/bowtie2/test_genome.4.bt2
md5sum: c25be5f8b0378abf7a58c8a880b87626
- path: ./output/bowtie2/bowtie2/test_genome.rev.1.bt2
- path: ./output/index/bowtie2/test_genome.rev.1.bt2
md5sum: 52be6950579598a990570fbcf5372184
- path: ./output/bowtie2/bowtie2/test_genome.rev.2.bt2
- path: ./output/index/bowtie2/test_genome.rev.2.bt2
md5sum: e3b4ef343dea4dd571642010a7d09597

10
tests/software/bwa/index/test.yml
View file

@ -4,13 +4,13 @@
- bwa
- bwa_index
files:
- path: ./output/bwa/bwa/test_genome.bwt
- path: ./output/index/bwa/test_genome.bwt
md5sum: 0469c30a1e239dd08f68afe66fde99da
- path: ./output/bwa/bwa/test_genome.amb
- path: ./output/index/bwa/test_genome.amb
md5sum: 3a68b8b2287e07dd3f5f95f4344ba76e
- path: ./output/bwa/bwa/test_genome.sa
- path: ./output/index/bwa/test_genome.sa
md5sum: ab3952cabf026b48cd3eb5bccbb636d1
- path: ./output/bwa/bwa/test_genome.pac
- path: ./output/index/bwa/test_genome.pac
md5sum: 983e3d2cd6f36e2546e6d25a0da78d66
- path: ./output/bwa/bwa/test_genome.ann
- path: ./output/index/bwa/test_genome.ann
md5sum: c32e11f6c859f166c7525a9c1d583567

10
tests/software/bwamem2/index/test.yml
View file

@ -4,13 +4,13 @@
- bwamem2
- bwamem2_index
files:
- path: ./output/bwamem2/bwamem2/test_genome.fasta.amb
- path: ./output/index/bwamem2/test_genome.fasta.amb
md5sum: 3a68b8b2287e07dd3f5f95f4344ba76e
- path: ./output/bwamem2/bwamem2/test_genome.fasta.pac
- path: ./output/index/bwamem2/test_genome.fasta.pac
md5sum: 983e3d2cd6f36e2546e6d25a0da78d66
- path: ./output/bwamem2/bwamem2/test_genome.fasta.0123
- path: ./output/index/bwamem2/test_genome.fasta.0123
md5sum: b02870de80106104abcb03cd9463e7d8
- path: ./output/bwamem2/bwamem2/test_genome.fasta.bwt.2bit.64
- path: ./output/index/bwamem2/test_genome.fasta.bwt.2bit.64
md5sum: d097a1b82dee375d41a1ea69895a9216
- path: ./output/bwamem2/bwamem2/test_genome.fasta.ann
- path: ./output/index/bwamem2/test_genome.fasta.ann
md5sum: c32e11f6c859f166c7525a9c1d583567

12
tests/software/bwameth/index/test.yml
View file

@ -4,15 +4,15 @@
- bwameth
- bwameth_index
files:
- path: ./output/bwameth/bwameth/test_genome.fasta.bwameth.c2t
- path: ./output/index/bwameth/test_genome.fasta.bwameth.c2t
md5sum: 98039984526a41d04d6bd92fcc040c62
- path: ./output/bwameth/bwameth/test_genome.fasta.bwameth.c2t.pac
- path: ./output/index/bwameth/test_genome.fasta.bwameth.c2t.pac
md5sum: 4d8e51cb0bbdeaf24576bdf0264d8653
- path: ./output/bwameth/bwameth/test_genome.fasta.bwameth.c2t.amb
- path: ./output/index/bwameth/test_genome.fasta.bwameth.c2t.amb
md5sum: 249a4195069071ce47cd0bae68abe376
- path: ./output/bwameth/bwameth/test_genome.fasta.bwameth.c2t.ann
- path: ./output/index/bwameth/test_genome.fasta.bwameth.c2t.ann
md5sum: 46524d4359dcdfb203a235ab3b930dbb
- path: ./output/bwameth/bwameth/test_genome.fasta.bwameth.c2t.bwt
- path: ./output/index/bwameth/test_genome.fasta.bwameth.c2t.bwt
md5sum: 84f65df7d42dbe84c9ccfaddfdd5ea6b
- path: ./output/bwameth/bwameth/test_genome.fasta.bwameth.c2t.sa
- path: ./output/index/bwameth/test_genome.fasta.bwameth.c2t.sa
md5sum: d25f6486f5134f57ed5b258f6fbb8673

30
tests/software/salmon/index/test.yml
View file

@ -4,28 +4,28 @@
- salmon
- salmon_index
files:
- path: ./output/salmon/salmon/ref_indexing.log
- path: ./output/salmon/salmon/refseq.bin
- path: ./output/index/salmon/ref_indexing.log
- path: ./output/index/salmon/refseq.bin
md5sum: 79c4ddf34be3a98d5a7b9d153629a6f7
- path: ./output/salmon/salmon/versionInfo.json
- path: ./output/index/salmon/versionInfo.json
md5sum: 204865f645102587c4953fccb256797c
- path: ./output/salmon/salmon/complete_ref_lens.bin
- path: ./output/index/salmon/complete_ref_lens.bin
md5sum: f57562f1fca3ae7b133f895ae13c3d08
- path: ./output/salmon/salmon/mphf.bin
- path: ./output/index/salmon/mphf.bin
md5sum: 53669a47610e33e031faafd32703b714
- path: ./output/salmon/salmon/pre_indexing.log
- path: ./output/salmon/salmon/ctable.bin
- path: ./output/salmon/salmon/duplicate_clusters.tsv
- path: ./output/index/salmon/pre_indexing.log
- path: ./output/index/salmon/ctable.bin
- path: ./output/index/salmon/duplicate_clusters.tsv
md5sum: 51b5292e3a874119c0e1aa566e95d70c
- path: ./output/salmon/salmon/reflengths.bin
- path: ./output/index/salmon/reflengths.bin
md5sum: f57562f1fca3ae7b133f895ae13c3d08
- path: ./output/salmon/salmon/info.json
- path: ./output/index/salmon/info.json
md5sum: 61ff4d3471134c280668355ddd39e99f
- path: ./output/salmon/salmon/refAccumLengths.bin
- path: ./output/index/salmon/refAccumLengths.bin
md5sum: 8d1970505b2b08ca0eb5ff7722b48cde
- path: ./output/salmon/salmon/ctg_offsets.bin
- path: ./output/index/salmon/ctg_offsets.bin
md5sum: 27a76542337df436436e66017f66dd25
- path: ./output/salmon/salmon/rank.bin
- path: ./output/index/salmon/rank.bin
md5sum: 3f34dca1ec26cdf89a6d19b1d1c07e71
- path: ./output/salmon/salmon/pos.bin
- path: ./output/salmon/salmon/seq.bin
- path: ./output/index/salmon/pos.bin
- path: ./output/index/salmon/seq.bin

29
tests/software/star/genomegenerate/test.yml
View file

@ -4,29 +4,28 @@
- star
- star_genomegenerate
files:
- path: output/star/star/Genome
- path: ./output/index/star/Genome
md5sum: 323c992bac354f93073ce0fc43f222f8
- path: output/star/star/SA
- path: ./output/index/star/SA
md5sum: 3e70e4fc6d031e1915bb510727f2c559
- path: output/star/star/SAindex
- path: ./output/index/star/SAindex
md5sum: a94198b95a245d4f64af2a7133b6ec7b
- path: output/star/star/chrLength.txt
- path: ./output/index/star/chrLength.txt
md5sum: f2bea3725fe1c01420c57fb73bdeb31a
- path: output/star/star/chrNameLength.txt
- path: ./output/index/star/chrNameLength.txt
md5sum: c7ceb0a8827b2ea91c386933bee48742
- path: output/star/star/chrStart.txt
- path: ./output/index/star/chrStart.txt
md5sum: faf5c55020c99eceeef3e34188ac0d2f
- path: output/star/star/exonGeTrInfo.tab
- path: ./output/index/star/exonGeTrInfo.tab
md5sum: aec6e7a1ae3fc8c638ce5a9ce9c886b6
- path: output/star/star/exonInfo.tab
- path: ./output/index/star/exonInfo.tab
md5sum: 42eca6ebc2dc72d9d6e6b3acd3714343
- path: output/star/star/genomeParameters.txt
md5sum: 05e1041cbfb7f81686e17bc80b3ddcea
- path: output/star/star/sjdbInfo.txt
- path: ./output/index/star/sjdbInfo.txt
md5sum: 1082ab459363b3f2f7aabcef0979c1ed
- path: output/star/star/sjdbList.fromGTF.out.tab
- path: ./output/index/star/sjdbList.fromGTF.out.tab
md5sum: d41d8cd98f00b204e9800998ecf8427e
- path: output/star/star/sjdbList.out.tab
- path: ./output/index/star/sjdbList.out.tab
md5sum: d41d8cd98f00b204e9800998ecf8427e
- path: output/star/star/transcriptInfo.tab
md5sum: 8fbe69abbbef4f89da3854873984dbac
- path: ./output/index/star/transcriptInfo.tab
md5sum: 8fbe69abbbef4f89da3854873984dbac
- path: ./output/index/star/genomeParameters.txt