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gnu: pigx-scrnaseq: Fix build.
* gnu/packages/bioinformatics.scm (pigx-scrnaseq)[arguments]: Add autoreconf step to work around m4 macro bug and missing VERSION file. [native-inputs]: Add autoconf and automake.
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@ -11258,8 +11258,20 @@ (define-public pigx-scrnaseq
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"1lc42hl8mz95kilh0z39s3wnv092mhm6vl2i394n0yfvdzk4f885"))))
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(build-system gnu-build-system)
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(arguments
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'(#:phases
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`(#:phases
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(modify-phases %standard-phases
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(add-before 'bootstrap 'autoreconf
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(lambda _
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;; This was fixed in commit
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;; c4ac067438ae9312b5786a72e2bfb3d795e3ec8a, but there is no
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;; release with this fix.
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(call-with-output-file "VERSION"
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(lambda (port) (display ,version port)))
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;; https://github.com/BIMSBbioinfo/pigx_scrnaseq/issues/59
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(substitute* "m4/ax_r_package.m4"
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(("if\\(is.na\\(packageDescription\\(\"PKG\"\\)\\)\\)")
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"if(system.file(package=\"PKG\") == \"\")"))
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(invoke "autoreconf" "-vif")))
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(add-before 'configure 'set-additional-environment-variables
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(lambda _
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;; Needed because of loompy
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@ -11308,6 +11320,8 @@ (define-public pigx-scrnaseq
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r-singlecellexperiment
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r-stringr
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r-yaml))
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(native-inputs
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(list autoconf automake))
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(home-page "https://bioinformatics.mdc-berlin.de/pigx/")
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(synopsis "Analysis pipeline for single-cell RNA sequencing experiments")
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(description
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