diff options
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 26 |
1 files changed, 14 insertions, 12 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 1e5108335e7..5a5ea40a6e9 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -25302,7 +25302,7 @@ module capable of computing base-level alignments for very large sequences.") (define-public gdcm (package (name "gdcm") - (version "3.0.20") + (version "3.2.2") (source (origin (method git-fetch) (uri (git-reference @@ -25312,14 +25312,12 @@ module capable of computing base-level alignments for very large sequences.") (file-name (git-file-name name version)) (sha256 (base32 - "1rf0p7dnakjry0fa6ax1h762bn0l5n6ibfdxn077mjvwgpqan51l")))) + "1d9dm1wawgjy6vgw3shqchqpjcic6hprwhn0v7dw1qkgn3y8508w")))) (build-system cmake-build-system) (outputs '("out" "doc")) (arguments (list - #:test-exclude (string-join (list "TestFileMetaInformation" - "TestElement2" - "TestSCUValidation" + #:test-exclude (string-join (list "TestSCUValidation" "TestWriter" "TestAnonymizer4" "TestPrinter1" @@ -25329,23 +25327,27 @@ module capable of computing base-level alignments for very large sequences.") "TestStrictScanner2_1" "TestStrictScanner2" "TestStrictScanner2_2" - "TestFind") + "TestFind" + ;; Fail with 'Unsupported JPEG data precision 12'. + "TestImageReaderRandomEmpty" + "TestTransferSyntax") "|") #:configure-flags - #~(list "-DGDCM_BUILD_TESTING=true" + #~(list "-DGDCM_BUILD_DOCBOOK_MANPAGES=ON" + "-DGDCM_BUILD_TESTING=true" "-DGDCM_DOCUMENTATION:BOOL=ON" - "-DGDCM_PDF_DOCUMENTATION:BOOL=OFF" (string-append "-DGDCM_INSTALL_DOC_DIR=" - #$output:doc "/share/doc/" #$name)) + #$output:doc "/share/doc/" #$name) + "-DGDCM_PDF_DOCUMENTATION:BOOL=OFF") #:phases #~(modify-phases %standard-phases (add-before 'build 'set-HOME - ;; The build spams ‘Fontconfig error: No writable cache - ;; directories’ in a seemingly endless loop otherwise. + ;; The build with documentation spams ‘Fontconfig error: No writable + ;; cache directories’ in a seemingly endless loop otherwise. (lambda _ (setenv "HOME" "/tmp")))))) (native-inputs (list docbook-xsl doxygen graphviz libxslt)) - (home-page "https://gdcm.sourceforge.net/wiki/index.php/Main_Page") + (home-page "https://sourceforge.net/projects/gdcm/") (synopsis "Grassroots DICOM library") (description "Grassroots DICOM (GDCM) is an implementation of the DICOM standard |