{bio}[GCCcore/13.3.0] FLASH v2.2.00

[PetrKralCZ]

(created using eb --new-pr)

[github-actions]

Updated software FLASH-2.2.00-GCCcore-13.3.0.eb

Diff against FLASH-2.2.00-GCCcore-12.2.0.eb

easybuild/easyconfigs/f/FLASH/FLASH-2.2.00-GCCcore-12.2.0.eb

diff --git a/easybuild/easyconfigs/f/FLASH/FLASH-2.2.00-GCCcore-12.2.0.eb b/easybuild/easyconfigs/f/FLASH/FLASH-2.2.00-GCCcore-13.3.0.eb
index 022f8adffb..e9bd75c1df 100644
--- a/easybuild/easyconfigs/f/FLASH/FLASH-2.2.00-GCCcore-12.2.0.eb
+++ b/easybuild/easyconfigs/f/FLASH/FLASH-2.2.00-GCCcore-13.3.0.eb
@@ -12,15 +12,15 @@ resulting longer reads can significantly improve genome assemblies. They can
 also improve transcriptome assembly when FLASH is used to merge RNA-seq data.
 """
 
-toolchain = {'name': 'GCCcore', 'version': '12.2.0'}
+toolchain = {'name': 'GCCcore', 'version': '13.3.0'}
 
 source_urls = ['https://github.com/dstreett/FLASH2/archive/']
 sources = ['%(version)s.zip']
 checksums = ['1e54b2dd7d21ca3e0595a3ffdd27ef3098f88c4de5b9302ec5ea074b49b79960']
 
-builddependencies = [('binutils', '2.39')]
+builddependencies = [('binutils', '2.42')]
 
-dependencies = [('zlib', '1.2.12')]
+dependencies = [('zlib', '1.3.1')]
 
 files_to_copy = [(['flash2'], 'bin')]
 

Diff against FLASH-2.2.00-GCC-11.2.0.eb

easybuild/easyconfigs/f/FLASH/FLASH-2.2.00-GCC-11.2.0.eb

diff --git a/easybuild/easyconfigs/f/FLASH/FLASH-2.2.00-GCC-11.2.0.eb b/easybuild/easyconfigs/f/FLASH/FLASH-2.2.00-GCCcore-13.3.0.eb
index a7d6de3d52..e9bd75c1df 100644
--- a/easybuild/easyconfigs/f/FLASH/FLASH-2.2.00-GCC-11.2.0.eb
+++ b/easybuild/easyconfigs/f/FLASH/FLASH-2.2.00-GCCcore-13.3.0.eb
@@ -12,12 +12,16 @@ resulting longer reads can significantly improve genome assemblies. They can
 also improve transcriptome assembly when FLASH is used to merge RNA-seq data.
 """
 
-toolchain = {'name': 'GCC', 'version': '11.2.0'}
+toolchain = {'name': 'GCCcore', 'version': '13.3.0'}
 
 source_urls = ['https://github.com/dstreett/FLASH2/archive/']
 sources = ['%(version)s.zip']
 checksums = ['1e54b2dd7d21ca3e0595a3ffdd27ef3098f88c4de5b9302ec5ea074b49b79960']
 
+builddependencies = [('binutils', '2.42')]
+
+dependencies = [('zlib', '1.3.1')]
+
 files_to_copy = [(['flash2'], 'bin')]
 
 postinstallcmds = ["cd %(installdir)s/bin && ln -s flash2 flash"]

Diff against FLASH-2.2.00-foss-2020b.eb

easybuild/easyconfigs/f/FLASH/FLASH-2.2.00-foss-2020b.eb

diff --git a/easybuild/easyconfigs/f/FLASH/FLASH-2.2.00-foss-2020b.eb b/easybuild/easyconfigs/f/FLASH/FLASH-2.2.00-GCCcore-13.3.0.eb
index 68775a2c86..e9bd75c1df 100644
--- a/easybuild/easyconfigs/f/FLASH/FLASH-2.2.00-foss-2020b.eb
+++ b/easybuild/easyconfigs/f/FLASH/FLASH-2.2.00-GCCcore-13.3.0.eb
@@ -12,12 +12,16 @@ resulting longer reads can significantly improve genome assemblies. They can
 also improve transcriptome assembly when FLASH is used to merge RNA-seq data.
 """
 
-toolchain = {'name': 'foss', 'version': '2020b'}
+toolchain = {'name': 'GCCcore', 'version': '13.3.0'}
 
 source_urls = ['https://github.com/dstreett/FLASH2/archive/']
 sources = ['%(version)s.zip']
 checksums = ['1e54b2dd7d21ca3e0595a3ffdd27ef3098f88c4de5b9302ec5ea074b49b79960']
 
+builddependencies = [('binutils', '2.42')]
+
+dependencies = [('zlib', '1.3.1')]
+
 files_to_copy = [(['flash2'], 'bin')]
 
 postinstallcmds = ["cd %(installdir)s/bin && ln -s flash2 flash"]

[PetrKralCZ]

@boegelbot please test @ jsc-zen3

[boegelbot]

@PetrKralCZ: Request for testing this PR well received on jsczen3l1.int.jsc-zen3.fz-juelich.de

PR test command 'if [[ develop != 'develop' ]]; then EB_BRANCH=develop ./easybuild_develop.sh 2> /dev/null 1>&2; EB_PREFIX=/home/boegelbot/easybuild/develop source init_env_easybuild_develop.sh; fi; EB_PR=22443 EB_ARGS= EB_CONTAINER= EB_REPO=easybuild-easyconfigs EB_BRANCH=develop /opt/software/slurm/bin/sbatch --job-name test_PR_22443 --ntasks=8 ~/boegelbot/eb_from_pr_upload_jsc-zen3.sh' executed!

• exit code: 0
• output:

Submitted batch job 5843

Test results coming soon (I hope)...

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it is of no use to you (unless you think I have a bug, which I don't).

[boegelbot]

Test report by @boegelbot
SUCCESS
Build succeeded for 1 out of 1 (1 easyconfigs in total)
jsczen3c1.int.jsc-zen3.fz-juelich.de - Linux Rocky Linux 9.5, x86_64, AMD EPYC-Milan Processor (zen3), Python 3.9.21
See https://gist.github.com/boegelbot/c89ca21ca947862f0cf462068e1028e6 for a full test report.