{bio}[foss/2023a] HOMER v4.11 w/ R 4.3.2, libidn2 v2.3.7, wget v1.24.5

easybuild/easyconfigs/h/HOMER/HOMER-4.11-foss-2023a-R-4.3.2.eb

@@ -0,0 +1,49 @@
+easyblock = 'Binary'
+
+name = 'HOMER'
+version = '4.11'
+versionsuffix = '-R-%(rver)s'
+
+homepage = "http://homer.ucsd.edu/homer/"
+description = """HOMER (Hypergeometric Optimization of Motif EnRichment) is a suite of tools for Motif Discovery and
+ next-gen sequencing analysis.  It is a collection of command line programs for unix-style operating systems written
+ in Perl and C++. HOMER was primarily written as a de novo motif discovery algorithm and is well suited for finding
+ 8-20 bp motifs in large scale genomics data.  HOMER contains many useful tools for analyzing ChIP-Seq, GRO-Seq,
+ RNA-Seq, DNase-Seq, Hi-C and numerous other types of functional genomics sequencing data sets."""
+
+toolchain = {'name': 'foss', 'version': '2023a'}
+
+source_urls = ['http://homer.ucsd.edu/homer']
+sources = ['configureHomer.pl']
+checksums = ['ccdaa3004a0e0df0882634671d4a1acc88364761e0e6c7ea329ebbf1eb729537']
+
+builddependencies = [
+    ('wget', '1.24.5'),
+    ('Zip', '3.0'),
+    ('UnZip', '6.0'),
+]
+
+dependencies = [
+    ('Perl', '5.36.1'),
+    ('R', '4.3.2'),
+    ('SAMtools', '1.18'),
+    ('R-bundle-Bioconductor', '3.18', versionsuffix)
+]
+
+postinstallcmds = ["cd %(installdir)s && perl ./configureHomer.pl -install homer -version v%(version)s"]
+
+sanity_check_paths = {
+    'files': [
+        'bin/homer',
+        'bin/getGenomeTilingPeaks',
+        'config.txt',
+        'DoughnutDocumentation.pdf',
+        'data/accession/homologene.data',
+        'motifs/hnf1b.motif',
+    ],
+    'dirs': ['bin', 'data', 'motifs', 'update'],
+}
+
+sanity_check_commands = ["%(namelower)s --help"]
+
+moduleclass = 'bio'

easybuild/easyconfigs/l/libidn2/libidn2-2.3.7-GCCcore-12.3.0.eb

@@ -0,0 +1,27 @@
+easyblock = 'ConfigureMake'
+
+name = 'libidn2'
+version = '2.3.7'
+
+homepage = 'http://www.gnu.org/software/%(name)s'
+description = "Libidn2 implements the revised algorithm for internationalized domain names called IDNA2008/TR46."
+
+toolchain = {'name': 'GCCcore', 'version': '12.3.0'}
+
+source_urls = ['https://ftp.gnu.org/gnu/libidn/']
+sources = [SOURCELOWER_TAR_GZ]
+checksums = ['4c21a791b610b9519b9d0e12b8097bf2f359b12f8dd92647611a929e6bfd7d64']
+
+builddependencies = [
+    ('binutils', '2.40'),
+]
+
+
+sanity_check_paths = {
+    'files': ['bin/idn2', 'lib/%s.%s' % (name, SHLIB_EXT)],
+    'dirs': ['include'],
+}
+
+sanity_check_commands = ['idn2 --help']
+
+moduleclass = 'lib'

easybuild/easyconfigs/w/wget/wget-1.24.5-GCCcore-12.3.0.eb

@@ -0,0 +1,50 @@
+easyblock = 'ConfigureMake'
+
+name = 'wget'
+version = '1.24.5'
+
+homepage = 'https://www.gnu.org/software/wget'
+description = """GNU Wget is a free software package for retrieving files using HTTP, HTTPS and FTP,
+ the most widely-used Internet protocols. It is a non-interactive commandline tool,
+ so it may easily be called from scripts, cron jobs, terminals without X-Windows support, etc."""
+
+toolchain = {'name': 'GCCcore', 'version': '12.3.0'}
+
+source_urls = [GNU_SOURCE]
+sources = [SOURCE_TAR_GZ]
+checksums = [
+    {SOURCE_TAR_GZ: 'fa2dc35bab5184ecbc46a9ef83def2aaaa3f4c9f3c97d4bd19dcb07d4da637de'},
+]
+
+builddependencies = [
+    ('binutils', '2.40'),
+    ('pkgconf', '1.9.5'),
+    ('Perl', '5.36.1'),
+]
+dependencies = [
+    ('PCRE', '8.45'),
+    ('libidn2', '2.3.7'),
+    ('zlib', '1.2.13'),
+    ('OpenSSL', '1.1', '', SYSTEM),
+    # OS dependency should be preferred if the os version is more recent then this version,
+    # it's nice to have an up to date gnutls for security reasons
+    # ('GnuTLS', '3.7.1'),
+]
+
+# make sure pkgconfig picks up system packages (OpenSSL & co)
+local_pc = "%(sysroot)s/usr/lib64/pkgconfig:"
+local_pc += "%(sysroot)s/usr/lib/pkgconfig:"
+local_pc += "%(sysroot)s/usr/lib/x86_64-linux-gnu/pkgconfig"
+preconfigopts = "export PKG_CONFIG_PATH=%s && " % local_pc
+configopts = '--with-ssl=openssl '
+
+# Optionally, you can use gnutls (default) instead of OpenSSL.
+# Do not forget to comment out configopts in that case.
+# osdependencies = [('gnutls-devel', 'gnutls-dev', 'libgnutls-devel')]
+
+sanity_check_paths = {
+    'files': ['bin/%(name)s'],
+    'dirs': [],
+}
+
+moduleclass = 'devel'