Merge pull request #72 from HumanCellAtlas/FT-FixedRequirements

Fixed versions and move install of dependencies to requirements.txt

Dockerfile

@@ -4,16 +4,7 @@ LABEL maintainer="Ambrose J. Carr <acarr@broadinstitute.org>" \
   software="python 3.6.2" \
   description="python 3.6.2 with pysam, sctools, requests, and a basic science stack"
 
-RUN pip3 install \
-    crimson==0.3.0 \
-    HTSeq==0.9.0 \
-    matplotlib==2.1.0 \
-    numpy==1.12.0 \
-    pandas==0.20.3 \
-    pysam==0.12.0.1 \
-    requests==2.18.4 \
-    scipy==1.1.0 \
-    tables==3.4.2
+RUN pip3 install -r requirements.txt
 
 WORKDIR usr/local/bin/sctools
 

requirements.txt

@@ -1,13 +1,17 @@
-gffutils>=0.9
-pysam==0.15.1
-numpy>=1.17.5
-pandas==0.25.3
-pytest>=3.4.2
-pytest-cov>=2.5.1
-scipy>=1.1.0
-crimson>=0.3.0
-setuptools>=40.4.3
-setuptools_scm>=3.1.0
+HTSeq==0.11.2
 black==19.3b0
+crimson==0.4.0
 flake8==3.7.7
+gffutils==0.9
+matplotlib==3.1.1
+numpy==1.17.5
+pandas==0.25.3
 pre-commit==1.14.4
+pysam==0.13.0
+pytest-cov==2.5.1
+pytest==5.1.1
+requests==2.20.0
+scipy==1.3.1
+setuptools==40.4.3
+setuptools_scm==3.1.0
+tables==3.4.2