{bio}[foss/2023b] ichorCNA v0.5.1-20240609 w/ R 4.4.1

[PhoenixEmik]

(created using eb --new-pr)

[github-actions]

Updated software ichorCNA-0.5.1-20240609-foss-2023b-R-4.4.1.eb

Diff against ichorCNA-0.3.2-20191219-foss-2023a.eb

easybuild/easyconfigs/i/ichorCNA/ichorCNA-0.3.2-20191219-foss-2023a.eb

diff --git a/easybuild/easyconfigs/i/ichorCNA/ichorCNA-0.3.2-20191219-foss-2023a.eb b/easybuild/easyconfigs/i/ichorCNA/ichorCNA-0.5.1-20240609-foss-2023b-R-4.4.1.eb
index b7d1e5dee0..b9b1df665c 100644
--- a/easybuild/easyconfigs/i/ichorCNA/ichorCNA-0.3.2-20191219-foss-2023a.eb
+++ b/easybuild/easyconfigs/i/ichorCNA/ichorCNA-0.5.1-20240609-foss-2023b-R-4.4.1.eb
@@ -1,28 +1,33 @@
+# The project has been moved to https://github.com/GavinHaLab/ichorCNA
+# Original homepage: https://github.com/broadinstitute/ichorCNA
+# Update: Emik Lin (HKUMed CPOS)
 easyblock = 'RPackage'
 
 name = 'ichorCNA'
-local_commit = '5bfc03e'
-version = '0.3.2-20191219'
-github_account = 'broadinstitute'
+local_commit = 'e5a6b30'
+# see DESCRIPTION to determine version,
+# but add date stamp of commit since version is not always bumped
+version = '0.5.1-20240609'
+versionsuffix = '-R-%(rver)s'
 
-homepage = 'https://github.com/broadinstitute/ichorCNA/wiki'
+homepage = 'https://github.com/GavinHaLab/ichorCNA'
 description = """ichorCNA is a tool for estimating the fraction of tumor in cell-free DNA from ultra-low-pass whole
 genome sequencing"""
 
-source_urls = [GITHUB_SOURCE]
+source_urls = ['https://github.com/GavinHaLab/ichorCNA/archive/']
 sources = [{'download_filename': '%s.tar.gz' % local_commit, 'filename': SOURCE_TAR_GZ}]
-checksums = ['38dbee4f4127fc27c4bd51fe3d99cb9eebea6fa9a15463127384923c217f1d74']
+checksums = ['6fba1d7527e78615f1935d6d6a82e91be4705a5d95bd027226449be33b4903b1']
 
-toolchain = {'name': 'foss', 'version': '2023a'}
+toolchain = {'name': 'foss', 'version': '2023b'}
 
 dependencies = [
-    ('R', '4.3.2'),
-    ('R-bundle-Bioconductor', '3.18', '-R-%(rver)s'),
+    ('R', '4.4.1'),
+    ('R-bundle-Bioconductor', '3.19', versionsuffix),
 ]
 
 sanity_check_paths = {
     'files': [],
-    'dirs': ['%(name)s'],
+    'dirs': [name],
 }
 
 moduleclass = 'bio'

[PhoenixEmik]

Test report by @PhoenixEmik
SUCCESS
Build succeeded for 1 out of 1 (1 easyconfigs in total)
rocky-8-build - Linux Rocky Linux 8.10 (Green Obsidian), x86_64, AMD Ryzen 7 7840HS w/ Radeon 780M Graphics, Python 3.9.20
See https://gist.github.com/PhoenixEmik/fb293f894295dbec39964c039d31733a for a full test report.

[Micket]

lgtm

[Micket]

@boegelbot please test @ jsc-zen3

[boegelbot]

@Micket: 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=24404 EB_ARGS= EB_CONTAINER= EB_REPO=easybuild-easyconfigs EB_BRANCH=develop /opt/software/slurm/bin/sbatch --job-name test_PR_24404 --ntasks=8 ~/boegelbot/eb_from_pr_upload_jsc-zen3.sh' executed!

• exit code: 0
• output:

Submitted batch job 8682

Test results coming soon (I hope)...

- notification for comment with ID 3502395502 processed

Message to humans: this is just bookkeeping information for me,
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 (total: 1 min 0 secs) (1 easyconfigs in total)
jsczen3c1.int.jsc-zen3.fz-juelich.de - Linux Rocky Linux 9.6, x86_64, AMD EPYC-Milan Processor (zen3), Python 3.9.21
See https://gist.github.com/boegelbot/d1c703e2c8ced7470de5666a4e15dd62 for a full test report.