Skip to content
Snippets Groups Projects
Commit c3d15275 authored by BIOPZ-Gypas Foivos's avatar BIOPZ-Gypas Foivos
Browse files

Replace cufflinks image with gffread image

parent 2dfb1c2c
Branches
Tags
No related merge requests found
Hide whitespace changes
Inline Side-by-side
Snakefile
+ 1
− 1
View file @ c3d15275
...@@ -207,7 +207,7 @@ rule extract_transcriptome: ...@@ -207,7 +207,7 @@ rule extract_transcriptome:
config['log_dir'], config['log_dir'],
"{organism}_extract_transcriptome.log") "{organism}_extract_transcriptome.log")
singularity: singularity:
"docker://zavolab/cufflinks:2.2.1" "docker://zavolab/gffread:0.11.7"
shell: shell:
"(gffread \ "(gffread \
-w {output.transcriptome} \ -w {output.transcriptome} \
......
tests/test_integration_workflow/expected_output.md5
+ 1
− 1
View file @ c3d15275
...@@ -86,4 +86,4 @@ ea91b4f85622561158bff2f7c9c312b3 results/single_end/synthetic_10_reads_mate_1_s ...@@ -86,4 +86,4 @@ ea91b4f85622561158bff2f7c9c312b3 results/single_end/synthetic_10_reads_mate_1_s
ede14ac41c10067838f375106fce4852 results/single_end/synthetic_10_reads_mate_1_synthetic_10_reads_mate_1/STAR_coverage/synthetic_10_reads_mate_1_synthetic_10_reads_mate_1_Signal.UniqueMultiple.str2.out.bg ede14ac41c10067838f375106fce4852 results/single_end/synthetic_10_reads_mate_1_synthetic_10_reads_mate_1/STAR_coverage/synthetic_10_reads_mate_1_synthetic_10_reads_mate_1_Signal.UniqueMultiple.str2.out.bg
ea91b4f85622561158bff2f7c9c312b3 results/single_end/synthetic_10_reads_mate_1_synthetic_10_reads_mate_1/STAR_coverage/synthetic_10_reads_mate_1_synthetic_10_reads_mate_1_Signal.Unique.str1.out.bg ea91b4f85622561158bff2f7c9c312b3 results/single_end/synthetic_10_reads_mate_1_synthetic_10_reads_mate_1/STAR_coverage/synthetic_10_reads_mate_1_synthetic_10_reads_mate_1_Signal.Unique.str1.out.bg
ede14ac41c10067838f375106fce4852 results/single_end/synthetic_10_reads_mate_1_synthetic_10_reads_mate_1/STAR_coverage/synthetic_10_reads_mate_1_synthetic_10_reads_mate_1_Signal.Unique.str2.out.bg ede14ac41c10067838f375106fce4852 results/single_end/synthetic_10_reads_mate_1_synthetic_10_reads_mate_1/STAR_coverage/synthetic_10_reads_mate_1_synthetic_10_reads_mate_1_Signal.Unique.str2.out.bg
79fc3e46b3ac1a72b80cb7bebf6058cd results/transcriptome/homo_sapiens/transcriptome.fa 3ce47cb1d62482c5d62337751d7e8552 results/transcriptome/homo_sapiens/transcriptome.fa
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Please register or to comment