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| author | pabloaledo <112545720+pabloaledo@users.noreply.github.com> | 2023-08-04 02:57:17 +0200 |
|---|---|---|
| committer | GitHub <noreply@github.com> | 2023-08-03 17:57:17 -0700 |
| commit | d2df0a29ceab157864c8a6d7d6a9a873a067a053 (patch) | |
| tree | f1e511a82758f7ec121f5fbe8083f84bd0783956 | |
| parent | 92e9daec9b505046b5718d16462345f574fad47a (diff) | |
| download | spack-d2df0a29ceab157864c8a6d7d6a9a873a067a053.tar.gz spack-d2df0a29ceab157864c8a6d7d6a9a873a067a053.tar.bz2 spack-d2df0a29ceab157864c8a6d7d6a9a873a067a053.tar.xz spack-d2df0a29ceab157864c8a6d7d6a9a873a067a053.zip | |
salmon: update version (#39202)
* salmon: update version
---------
Signed-off-by: Pablo <pablo.aledo@seqera.io>
| -rw-r--r-- | var/spack/repos/builtin/packages/salmon/fix_hts.patch | 11 | ||||
| -rw-r--r-- | var/spack/repos/builtin/packages/salmon/package.py | 9 |
2 files changed, 20 insertions, 0 deletions
diff --git a/var/spack/repos/builtin/packages/salmon/fix_hts.patch b/var/spack/repos/builtin/packages/salmon/fix_hts.patch new file mode 100644 index 0000000000..c5eb36482f --- /dev/null +++ b/var/spack/repos/builtin/packages/salmon/fix_hts.patch @@ -0,0 +1,11 @@ +--- a/cmake/Modules/Findlibstadenio.cmake ++++ /dev/null +@@ -13,7 +13,7 @@ find_path(STADEN_INCLUDE_DIR io_lib + find_library(STADEN_LIBRARY NAMES staden-read libstaden-read + HINTS ${STADEN_ROOT} ENV STADEN_ROOT PATH_SUFFIXES lib lib64) + +-find_library(HTSCODEC_LIBRARY NAMES htscodecs libhtscodecs ++find_library(HTSCODEC_LIBRARY NAMES htscodecs libhtscodecs hts + HINTS ${STADEN_ROOT} ENV STADEN_ROOT PATH_SUFFIXES lib lib64) + + if(STADEN_INCLUDE_DIR) diff --git a/var/spack/repos/builtin/packages/salmon/package.py b/var/spack/repos/builtin/packages/salmon/package.py index 553a2d1767..2aa2239dd6 100644 --- a/var/spack/repos/builtin/packages/salmon/package.py +++ b/var/spack/repos/builtin/packages/salmon/package.py @@ -13,6 +13,7 @@ class Salmon(CMakePackage): url = "https://github.com/COMBINE-lab/salmon/archive/v0.8.2.tar.gz" maintainers("snehring") + version("1.10.2", sha256="976989182160fef3afb4429ee8b85d8dd39ed6ca212bb14d6a65cde0e985fb98") version("1.9.0", sha256="450d953a5c43fe63fd745733f478d3fbaf24d926cb52731fd38ee21c4990d613") version("1.4.0", sha256="6d3e25387450710f0aa779a1e9aaa9b4dec842324ff8551d66962d7c7606e71d") version("0.14.1", sha256="05289170e69b5f291a8403b40d6b9bff54cc38825e9f721c210192b51a19273e") @@ -55,11 +56,19 @@ class Salmon(CMakePackage): depends_on("libgff") depends_on("pkgconfig") depends_on("curl", when="@0.14.1:") + depends_on("htslib", when="@1.10.2") + + patch("fix_hts.patch", when="@1.10.2") conflicts("%gcc@:5.1", when="@0.14.1:") resources = [ ( + "1.10.2", + "pufferfish", + "f225b74833f71dcf767a565345224357fb091f90ce79717abc836814d9ccd101", + ), + ( "1.9.0", "pufferfish", "2a862daeff95a19c9b188bc26a5d02fc0ecc5b9c9ae5523a67c9d14e62551c5d", |