build hic2cool from github

mariux64 · Mar 11, 2020 · 9baa7f5 · 9baa7f5
1 parent 4dd95b6
commit 9baa7f5
Showing 1 changed file with 31 additions and 0 deletions.
diff --git a/python-3.7.6-0.build.sh b/python-3.7.6-0.build.sh
@@ -311,6 +311,37 @@ pip3 install --prefix=$PREFIX multiqc
 	python3 setup.py install --prefix $PREFIX
 )
 
+# hic2cool from to stop downgrading python packages
+(
+	HICVERS=0.8.0
+
+	. ${PREFIX}/profile
+	cd $BUILDDIR
+	test -e hic2cool-${HICVERS}.tar.gz || wget https://github.com/4dn-dcic/hic2cool/archive/${HICVERS}/hic2cool-${HICVERS}.tar.gz
+	test -d hic2cool-${HICVERS} || tar -xf hic2cool-${HICVERS}.tar.gz
+
+	cd hic2cool-${HICVERS}
+	patch -p1 <<'EOFHIC'
+diff --git a/requirements.txt b/requirements.txt
+index d7e701b..9d3a01c 100644
+--- a/requirements.txt
++++ b/requirements.txt
+@@ -1,5 +1,5 @@
+-h5py==2.8.0
+-pandas==0.24.2
+-numpy==1.16.3
+-scipy==1.2.1
+-cooler==0.8.5
++h5py
++pandas
++numpy
++scipy
++cooler
+EOFHIC
+	pip3 install -r requirements.txt --prefix ${PREFIX}
+	python3 setup.py install --prefix ${PREFIX}
+)
+
 #tensorflow
 (
 	TFVERSION=2.1.0