Make output files write-protected

[ManavalanG]

In GitLab by @ManavalanG on Apr 6, 2021, 08:45

[ManavalanG]

mentioned in commit f7ddc28

[ManavalanG]

Not all files tagged with protected are made read-only by snakemake. Another one of snakemake's quirks? 😠

[ManavalanG]

Question: Is this a bug in snakemake v6.0.5, which is used in QuaC pipeline? Is it also present in snakemake v5.9.1?

Ran QuaC pipeline with snakemake v5.9.1. It behaved the same way as did v6.0.5. That is, the same selective files that were write protected by v6.0.5 are the only ones write protected by v5.9.1.

manag@login001:/scratch/manag/tmp/quac/results/test_project/analysis$ fd -l | grep -e "-r--r--r--"
-r--r--r--  1 manag manag  54K Apr 11 18:12 project_level_qc/covviz/covviz_report.html
-r--r--r--  1 manag manag 2.0K Apr 11 18:11 project_level_qc/indexcov/indexcov-indexcov.bed.gz
-r--r--r--  1 manag manag 7.1K Apr 11 18:11 project_level_qc/indexcov/index.html
-r--r--r--  1 manag manag 1.6K Apr 11 18:12 project_level_qc/mosdepth/mosdepth.html
-r--r--r--  1 manag manag  166 Apr 11 18:11 project_level_qc/multiqc/aggregated_rename_configs.tsv
-r--r--r--  1 manag manag 1.8M Apr 11 18:13 project_level_qc/multiqc/multiqc_report.html
-r--r--r--  1 manag manag 271K Apr 11 18:13 project_level_qc/somalier/ancestry/somalier.somalier-ancestry.html
-r--r--r--  1 manag manag 211K Apr 11 18:13 project_level_qc/somalier/ancestry/somalier.somalier-ancestry.tsv
-r--r--r--  1 manag manag  23K Apr 11 18:12 project_level_qc/somalier/relatedness/somalier.html
-r--r--r--  1 manag manag  211 Apr 11 18:12 project_level_qc/somalier/relatedness/somalier.pairs.tsv
-r--r--r--  1 manag manag  440 Apr 11 18:12 project_level_qc/somalier/relatedness/somalier.samples.tsv

Conclusion: Switching to v5.9.1 would not solve the problem.