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Add check to see if bowtie bam files exists

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This commit is contained in:
drpatelh 2021-02-03 16:26:10 +00:00
parent 239cbe17ad
commit 9b153f296d
2 changed files with 8 additions and 0 deletions
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4
tests/software/bowtie/align/test.yml
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@ -19,6 +19,8 @@
md5sum: f3c398bba5158f4039334a932d79c051 md5sum: f3c398bba5158f4039334a932d79c051
- path: output/bowtie/test.out - path: output/bowtie/test.out
md5sum: a81cb18024616415a6cec3108a36fccd md5sum: a81cb18024616415a6cec3108a36fccd
- path: output/bowtie/test.bam
should_exist: true
- name: bowtie align paired-end - name: bowtie align paired-end
command: nextflow run ./tests/software/bowtie -entry test_bowtie_alignment_paired_end -c tests/config/nextflow.config command: nextflow run ./tests/software/bowtie -entry test_bowtie_alignment_paired_end -c tests/config/nextflow.config
@ -41,3 +43,5 @@
md5sum: f3c398bba5158f4039334a932d79c051 md5sum: f3c398bba5158f4039334a932d79c051
- path: output/bowtie/test.out - path: output/bowtie/test.out
md5sum: a23e9a2a76e949aeb3693bcfae41a615 md5sum: a23e9a2a76e949aeb3693bcfae41a615
- path: output/bowtie/test.bam
should_exist: true

4
tests/software/bowtie2/align/test.yml
View file

@ -18,6 +18,8 @@
md5sum: 5e8fb4af677eb3a57a40e76dc3f6db72 md5sum: 5e8fb4af677eb3a57a40e76dc3f6db72
- path: output/bowtie2/test.bowtie2.log - path: output/bowtie2/test.bowtie2.log
md5sum: 90041c264231be535042adb93a279356 md5sum: 90041c264231be535042adb93a279356
- path: output/bowtie2/test.bam
should_exist: true
- name: bowtie2 align paired-end - name: bowtie2 align paired-end
command: nextflow run ./tests/software/bowtie2 -entry test_bowtie2_align_paired_end -c tests/config/nextflow.config command: nextflow run ./tests/software/bowtie2 -entry test_bowtie2_align_paired_end -c tests/config/nextflow.config
@ -39,3 +41,5 @@
md5sum: 5e8fb4af677eb3a57a40e76dc3f6db72 md5sum: 5e8fb4af677eb3a57a40e76dc3f6db72
- path: output/bowtie2/test.bowtie2.log - path: output/bowtie2/test.bowtie2.log
md5sum: 9f9eb40b5f57e0f2d5c874f2c1b5cfd5 md5sum: 9f9eb40b5f57e0f2d5c874f2c1b5cfd5
- path: output/bowtie2/test.bam
should_exist: true