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| author | Ricardo Wurmus <rekado@elephly.net> | 2022-06-01 10:45:23 +0200 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2022-06-01 10:46:00 +0200 |
| commit | 0c26c8da9d9bb86bfbe8fe9a52ba7b2ba9c6e3ec (patch) | |
| tree | e45f6631b491ea60076e9ecde617279fc0c4fbe3 | |
| parent | 1600d5cd3a829f9472a64bbacad58887265f9e34 (diff) | |
gnu: pigx-rnaseq: Fix build.
* gnu/packages/bioinformatics.scm (pigx-rnaseq)[arguments]: Add phase 'patch-knitr.
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 7 |
1 files changed, 7 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 7059be7d24..6ce011af0f 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -10455,6 +10455,13 @@ once. This package provides tools to perform Drop-seq analyses.") `(#:parallel-tests? #f ; not supported #:phases (modify-phases %standard-phases + ;; knitr 0.39 changes the default behavior of how graphics are + ;; included. + (add-after 'unpack 'patch-knitr + (lambda _ + (substitute* "scripts/runDeseqReport.R" + (("outFile <- paste0" m) + (string-append "options(knitr.graphics.rel_path = FALSE)\n" m))))) ;; "test.sh" runs the whole pipeline, which takes a long time and ;; might fail due to OOM. The MultiQC is also resource intensive. (add-after 'unpack 'disable-resource-intensive-test |