Merge pull request easybuilders#19812 from PetrKralCZ/20240208100746_…

…new_pr_IonQuant11012

{bio}[system/system] IonQuant v1.10.12 w/ Java 11

easybuild/easyconfigs/i/IonQuant/IonQuant-1.10.12-Java-11.eb

@@ -0,0 +1,37 @@
+easyblock = 'Tarball'
+
+name = 'IonQuant'
+version = '1.10.12'
+versionsuffix = '-Java-%(javaver)s'
+
+homepage = 'https://ionquant.nesvilab.org/'
+description = """IonQuant is a fast and comprehensive tool for MS1 precursor intensity-based
+ quantification for timsTOF PASEF DDA and non-timsTOF (e.g., Orbitrap) data. It enables label-free
+ quantification with false discovery (FDR) controlled match-between-runs (MBR). It can also be used
+ for quantification in labelling-based experiments such as those involving SILAC, dimethyl, or similar
+ labelling strategies. IonQuant is available as part of FragPipe."""
+
+toolchain = SYSTEM
+
+sources = ['%(name)s-%(version)s.zip']
+checksums = ['861a633ab815a34ea54e6e26f318e19b510b25cb8955f3daeb83d6d10c6938ea']
+
+download_instructions = 'Manual download required, see https://msfragger.arsci.com/ionquant/'
+
+dependencies = [('Java', '11')]
+
+postinstallcmds = [
+    "mkdir -p %(installdir)s/bin",
+    "echo '#!/bin/sh' > %(installdir)s/bin/%(namelower)s",
+    "echo 'java -jar %(installdir)s/%(name)s-%(version)s.jar $@' >> %(installdir)s/bin/%(namelower)s",
+    "chmod a+rx %(installdir)s/bin/%(namelower)s",
+]
+
+sanity_check_paths = {
+    'files': ['%(name)s-%(version)s.jar'],
+    'dirs': [],
+}
+
+sanity_check_commands = ["%(namelower)s | grep '^Usage'"]
+
+moduleclass = 'bio'