add missing PEAR dependency in easyconfig for GBprocesS v2.3 + enhance sanity check

easybuild/easyconfigs/g/GBprocesS/GBprocesS-2.3-intel-2020a-Python-3.8.2.eb

@@ -22,6 +22,7 @@ dependencies = [
     ('Python', '3.8.2'),
     ('cutadapt', '2.10', '-Python-%(pyver)s'),
     ('Biopython', '1.78', versionsuffix),
+    ('PEAR', '0.9.11'),
 ]
 
 use_pip = True
@@ -38,6 +39,20 @@ pretestopts = (
 
 runtest = 'python -m unittest discover -v -s ./test -p test_*.py'
 
+sanity_check_commands = [
+    "touch %(builddir)s/17146FL-13-01-01_S97_L002_R1_001.fastq",
+    "touch %(builddir)s/17146FL-13-01-01_S97_L002_R2_001.fastq",
+    # Trivial configuration file to use when running gbprocess sanity check
+    # See https://gitlab.com/dschaumont/GBprocesS/-/blob/master/docs/user_guide.rst
+    "echo '[General]' > %(builddir)s/config.ini",
+    "echo 'cores = 1' >>  %(builddir)s/config.ini",
+    "echo 'input_directory = %(builddir)s/' >>  %(builddir)s/config.ini",
+    "echo 'sequencing_type = pe' >>  %(builddir)s/config.ini",
+    "echo 'input_file_name_template = {run:25}_R{orientation:1}_001{extension}' >>  %(builddir)s/config.ini",
+    "echo 'temp_dir = %(builddir)s/' >>  %(builddir)s/config.ini",
+    "gbprocess --debug -c %(builddir)s/config.ini",
+]
+
 options = {'modulename': 'gbprocess'}
 
 moduleclass = 'bio'

easybuild/easyconfigs/p/PEAR/PEAR-0.9.11-GCCcore-9.3.0.eb

@@ -0,0 +1,34 @@
+easyblock = 'ConfigureMake'
+
+name = 'PEAR'
+version = '0.9.11'
+
+homepage = 'https://cme.h-its.org/exelixis/web/software/%(namelower)s/'
+description = """PEAR is an ultrafast, memory-efficient and highly accurate pair-end read merger. 
+ It is fully parallelized and can run with as low as just a few kilobytes of memory."""
+
+toolchain = {'name': 'GCCcore', 'version': '9.3.0'}
+
+# Needs manual download via web-form,
+# https://www.h-its.org/en/research/sco/software/#NextGenerationSequencingSequenceAnalysis
+sources = ['%(namelower)s-src-%(version)s.tar.gz']
+checksums = ['94f4a1835cd75ec6fab83405c2545ddba6b6bb1644579222e9cc2ad57a59d654']
+
+builddependencies = [
+    ('Autotools', '20180311'),
+    ('binutils', '2.34'),
+]
+
+dependencies = [
+    ('zlib', '1.2.11'),
+    ('bzip2', '1.0.8'),
+]
+
+preconfigopts = 'autoreconf && '
+
+sanity_check_paths = {
+    'files': ['bin/%(namelower)s'],
+    'dirs': [],
+}
+
+moduleclass = 'bio'