From 104279ec39eceb5b83d7be8b5f51533c14caae21 Mon Sep 17 00:00:00 2001 From: thanhleviet Date: Sun, 8 Mar 2020 19:47:49 +0000 Subject: [PATCH 1/2] update Dockerfile for cellranger --- docker/cellranger/requirements.txt | 79 ++++++++++++++++++++++++++++++ 1 file changed, 79 insertions(+) create mode 100644 docker/cellranger/requirements.txt diff --git a/docker/cellranger/requirements.txt b/docker/cellranger/requirements.txt new file mode 100644 index 00000000..ec2d556c --- /dev/null +++ b/docker/cellranger/requirements.txt @@ -0,0 +1,79 @@ +abstract_rendering==0.5.1 +argcomplete==0.8.4 +bcolz==1.0.0 +beautifulsoup4 +binstar==0.10.1 +bitarray==0.8.1 +blaze==0.9.0 +certifi==14.05.14 +cffi==0.9.2 +clyent==0.3.4 +colorama==0.3.3 +configobj==5.0.6 +cytoolz==0.7.2 +datashape==0.4.4 +decorator==3.4.0 +docutils==0.12 +enum34==1.1.6 +fastcache==1.0.2 +fontconfig +funcsigs==0.4 +futures==2.2.0 +greenlet==0.4.5 +grin==1.2.1 +illuminate +itsdangerous==0.24 +jdcal +jedi==0.8.1 +jinja2==2.7.3 +jsonschema==2.4.0 +lz4==2.2.1 +markupsafe==0.23 +mistune==0.5.1 +mock==1.0.1 +multipledispatch==0.4.7 +networkx==1.9.1 +numba==0.17.0 +numexpr==2.6.2 +numpy +odo==0.3.1 +openpyxl==1.8.5 +pandas==0.22.0 +patsy==0.3.0 +pep8==1.6.2 +pillow==2.7.0 +pip==8.1.2 +ply==3.4 +psutil==2.2.1 +ptyprocess==0.4 +pyasn1==0.1.7 +pycosat==0.6.1 +pycparser==2.10 +pycrypto==2.6.1 +pycurl==7.19.5.1 +pyfasta +pyopenssl==0.14 +pyparsing==2.0.3 +pysam +pytest==2.6.4 +python-dateutil==2.5.0 +pytz==2015.2 +PyVCF +pyyaml==3.11 +pyzmq==14.5.0 +readline==6.2 +requests==2.11.1 +rope==0.9.4 +runipy==0.1.3 +scikit-learn==0.17.1 +scipy==0.18.1 +setuptools==27.2.0 +six==1.9.0 +toolz==0.7.1 +ujson==1.33 +unicodecsv==0.9.4 +werkzeug==0.10.1 +wheel==0.29.0 +xlrd==0.9.3 +xlsxwriter==0.6.7 +xlwt==0.7.5 From b4efb7f14bbd3a718ffb0c10fa5f48a6b75b4294 Mon Sep 17 00:00:00 2001 From: Harshil Patel Date: Fri, 13 Mar 2020 17:05:36 +0000 Subject: [PATCH 2/2] Update requirements.txt --- docker/cellranger/requirements.txt | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/docker/cellranger/requirements.txt b/docker/cellranger/requirements.txt index ec2d556c..a6073f40 100644 --- a/docker/cellranger/requirements.txt +++ b/docker/cellranger/requirements.txt @@ -21,11 +21,12 @@ funcsigs==0.4 futures==2.2.0 greenlet==0.4.5 grin==1.2.1 +h5py==2.6.0 illuminate itsdangerous==0.24 jdcal jedi==0.8.1 -jinja2==2.7.3 +jinja2==2.10.1 jsonschema==2.4.0 lz4==2.2.1 markupsafe==0.23