Michael R. Crusoe pushed to branch master at Debian Med / trinityrnaseq
Commits: e79a057e by Michael R. Crusoe at 2023-09-13T19:56:58+02:00 d/control: move many deps of the binary package to recommends/suggests. As not all deps are needed for all usages, this enables utilitly on architectures where some deps are not available. - - - - - f512d7e5 by Michael R. Crusoe at 2023-09-13T22:02:31+02:00 routine-update: Ready to upload to unstable - - - - - 4 changed files: - debian/changelog - debian/control - debian/tests/control - debian/tests/run-tests Changes: ===================================== debian/changelog ===================================== @@ -1,3 +1,11 @@ +trinityrnaseq (2.15.1+dfsg-2) unstable; urgency=medium + + * d/control: move many deps of the binary package to recommends/suggests. + As not all deps are needed for all usages, this enables + usage on architectures where some deps are not available. + + -- Michael R. Crusoe <[email protected]> Wed, 13 Sep 2023 22:02:31 +0200 + trinityrnaseq (2.15.1+dfsg-1) unstable; urgency=medium [ Michael R. Crusoe ] ===================================== debian/control ===================================== @@ -32,47 +32,47 @@ Depends: ${shlibs:Depends}, samtools, jellyfish, r-base-core, - r-cran-cluster, - r-bioc-qvalue, rsem, berkeley-express, trimmomatic, - transdecoder, parafly, - curl, - salmon, - python3-numpy, ncbi-blast+, python3, - r-cran-readr, - r-bioc-edger, - r-bioc-deseq2, - r-bioc-rots, - r-cran-fastcluster, liburi-perl, - r-cran-ape, - r-bioc-ctc, - r-cran-gplots, - r-bioc-biobase, - r-bioc-goseq, - r-bioc-tximport, python3-htseq, - rna-star, - gmap, - hisat2, subread, - kallisto, - python3-hisat2, - r-cran-argparse, - r-cran-goplot, - r-bioc-dexseq -# r-bioc-glimma + kallisto Recommends: ${java:Recommends}, + curl, trinityrnaseq-examples, - r-cran-tidyverse, picard-tools, - tabix + tabix, + gmap, + salmon, + rna-star, + hisat2, + r-cran-tidyverse, + r-cran-readr, + r-bioc-edger, + r-bioc-deseq2, + r-bioc-rots, + r-cran-cluster, + r-cran-fastcluster, + r-bioc-ctc, + r-bioc-goseq, + r-cran-goplot, + r-cran-gplots, + r-bioc-dexseq, + r-cran-ape, + r-bioc-biobase, + r-bioc-qvalue, + r-cran-argparse, + r-cran-kernsmooth, + python3-numpy, + python3-hisat2 Suggests: collectl, + transdecoder, + r-bioc-tximport, r-bioc-tximportdata Description: RNA-Seq De novo Assembly Trinity represents a novel method for the efficient and robust de novo ===================================== debian/tests/control ===================================== @@ -1,3 +1,3 @@ Tests: run-tests -Depends: trinityrnaseq, trinityrnaseq-examples, r-cran-tidyverse, libpicard-java +Depends: trinityrnaseq, trinityrnaseq-examples, r-cran-tidyverse, libpicard-java, salmon, r-bioc-edger, r-bioc-deseq2, r-cran-cluster, r-bioc-qvalue, r-cran-fastcluster, r-bioc-goseq, r-cran-argparse, r-cran-goplot, r-cran-kernsmooth, hisat2, python3-hisat2, r-bioc-dexseq Restrictions: skip-not-installable, allow-stderr ===================================== debian/tests/run-tests ===================================== @@ -15,6 +15,7 @@ rm -f trinityrnaseq/sample_data cp -rs /usr/share/trinityrnaseq/sample_data trinityrnaseq/ cp -rs /usr/share/trinityrnaseq/trinity_ext_sample_data trinityrnaseq/ rm trinityrnaseq/trinity_ext_sample_data/test_SuperTranscript/indiv_tests/S-Lap3_flush/st.fasta + cd trinityrnaseq/sample_data LD_PRELOAD= make test_all cd ../trinity_ext_sample_data View it on GitLab: https://salsa.debian.org/med-team/trinityrnaseq/-/compare/f29217285ea0f7de3276eeb05ab42f371117c437...f512d7e5768e7af193ee6db1b69fbe569d82e4c3 -- View it on GitLab: https://salsa.debian.org/med-team/trinityrnaseq/-/compare/f29217285ea0f7de3276eeb05ab42f371117c437...f512d7e5768e7af193ee6db1b69fbe569d82e4c3 You're receiving this email because of your account on salsa.debian.org.
_______________________________________________ debian-med-commit mailing list [email protected] https://alioth-lists.debian.net/cgi-bin/mailman/listinfo/debian-med-commit
