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authorDesmond Orton <odesmond21@gmail.com>2021-05-18 12:12:33 -0600
committerGitHub <noreply@github.com>2021-05-18 11:12:33 -0700
commitc22a5326d802205b802268df64cb41675065908e (patch)
tree3a2188b2b1fdaa97e7a5ad6b45005fba135ac027
parent13cb8ef2c214ebf2e1312132ce1aeb581e4a84bf (diff)
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trinity: Version Update to 2.12.0 (#23430)
Added version requirements for deps Changed url to get proper versions
-rw-r--r--var/spack/repos/builtin/packages/trinity/package.py11
1 files changed, 11 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/trinity/package.py b/var/spack/repos/builtin/packages/trinity/package.py
index efb7a1f572..d1f557895d 100644
--- a/var/spack/repos/builtin/packages/trinity/package.py
+++ b/var/spack/repos/builtin/packages/trinity/package.py
@@ -22,8 +22,11 @@ class Trinity(MakefilePackage):
homepage = "http://trinityrnaseq.github.io/"
url = "https://github.com/trinityrnaseq/trinityrnaseq/archive/Trinity-v2.6.6.tar.gz"
+ version('2.12.0.FULL', sha256='0d47dc433cc3003e1c732b97da605e29c6ccafa38cd52cdb8ecc42399a9195d0',
+ url="https://github.com/trinityrnaseq/trinityrnaseq/releases/download/v2.12.0/trinityrnaseq-v2.12.0.FULL.tar.gz")
version('2.6.6', sha256='868dfadeefaf2d3c6150a88d5e86fbc09466d69bbf4a65f70b4f5a7485668984')
+ depends_on("cmake", type="build")
depends_on("java@8:", type=("build", "run"))
depends_on("bowtie2")
depends_on("jellyfish")
@@ -36,6 +39,14 @@ class Trinity(MakefilePackage):
# There is no documented list of these deps, but they're in the Dockerfile
# and we have runtime errors without them
# https://github.com/trinityrnaseq/trinityrnaseq/blob/master/Docker/Dockerfile
+ depends_on("r-dexseq", type="run", when="@2.12")
+ depends_on("star", type="run", when="@2.12")
+ depends_on("picard", type="run", when="@2.12")
+ depends_on("subread", type="run", when="@2.12")
+ depends_on("gatk", type="run", when="@2.12")
+ depends_on("gmap-gsnap", type="run", when="@2.12")
+ depends_on("r-tximport", type="run", when="@2.12")
+ depends_on("r-tximportdata", type="run", when="@2.12")
depends_on("blast-plus", type="run")
depends_on("bowtie", type="run")
depends_on("r", type="run")