mirror of
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Merge pull request #5786 from nsoranzo/default_pipfile
Use pipenv also for the default dependencies
This commit is contained in:
Dannon Baker
@@ -1,90 +0,0 @@
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# bx-python and dependencies
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numpy==1.9.2
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python-lzo==1.11
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bx-python==0.8.1
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# packages with C extensions
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MarkupSafe==1.0
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PyYAML==3.12
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SQLAlchemy==1.2.2
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sqlalchemy-utils==0.32.19
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mercurial==3.7.3; python_version < '3.0'
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pycrypto==2.6.1
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uWSGI==2.0.15
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# Flexible BAM index naming is new to core pysam
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pysam==0.14
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# pure Python packages
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bdbag==1.1.1
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bleach==2.1.3
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bz2file==0.98; python_version < '3.3'
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ipaddress==1.0.18; python_version < '3.3'
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boltons==17.1.0
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Paste==2.0.3
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PasteDeploy==1.5.2
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docutils==0.14
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repoze.lru==0.6
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Routes==2.4.1
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WebOb==1.4.1
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Mako==1.0.2
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pytz==2018.3
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Babel==2.5.3
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Beaker==1.7.0
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dictobj==0.3.1
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nose==1.3.7
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Parsley==1.3
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six==1.11.0
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Whoosh==2.7.4
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galaxy_sequence_utils==1.0.2
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h5py==2.7.1
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packaging==17.1
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# pykwalify and dependencies
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pykwalify==1.6.0
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python-dateutil==2.5.3
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docopt==0.6.2
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# Cheetah and dependencies
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Cheetah3==3.0.0
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Markdown==2.6.3
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# Requests and dependencies
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requests==2.18.4
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certifi==2018.1.18
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urllib3==1.22
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chardet==3.0.4
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idna==2.6
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# BioBlend and dependencies
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bioblend==0.7.0
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boto==2.38.0
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requests-toolbelt==0.8.0
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# kombu and dependencies
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kombu==3.0.30
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amqp==1.4.8
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anyjson==0.3.3
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# Pulsar requirements
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psutil==4.1.0
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pulsar-galaxy-lib==0.8.3
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# sqlalchemy-migrate and dependencies
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sqlalchemy-migrate==0.11.0
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decorator==4.0.2
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Tempita==0.5.3dev
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sqlparse==0.1.16
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pbr==3.1.1
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# svgwrite and dependencies
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svgwrite==1.1.6
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pyparsing==2.2.0
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# Fabric and dependencies
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Fabric3==1.13.1.post1
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paramiko==2.2.1
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ecdsa==0.13
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# GenomeSpace dependencies
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python-genomespaceclient==0.1.8
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@@ -0,0 +1 @@
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pipfiles/default/pinned-requirements.txt
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@@ -0,0 +1,55 @@
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[[source]]
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url = "https://pypi.python.org/simple"
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verify_ssl = true
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name = "pypi"
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[dev-packages]
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[packages]
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numpy = "*"
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bx-python = "*"
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MarkupSafe = "*"
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PyYAML = "*"
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SQLAlchemy = "*"
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SQLAlchemy-Utils = "*"
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Mercurial = {version = "<=3.7.3", markers = "python_version < '3'"}
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pycrypto = "*"
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uWSGI = "*"
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pysam = "*"
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bdbag = "*"
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bleach = "*"
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"bz2file" = {version = "*", markers = "python_version < '3.3'"}
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ipaddress = {version = "*", markers = "python_version < '3.3'"}
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boltons = "*"
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Paste = "*"
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docutils = "*"
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Routes = "*"
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WebOb = "<=1.4.2"
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Mako = "*"
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Babel = "*"
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Beaker = "*"
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dictobj = "*"
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nose = "*"
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Parsley = "*"
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six = "*"
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Whoosh = "*"
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galaxy_sequence_utils = "*"
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"h5py" = "!=2.7.0, !=2.7.1"
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pykwalify = "*"
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"Cheetah3" = "*"
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requests = "*"
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bioblend = "*"
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boto = "*"
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kombu = "*"
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psutil = "*"
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pulsar-galaxy-lib = "*"
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sqlalchemy-migrate = "*"
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sqlparse = "*"
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svgwrite = "*"
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pyparsing = "*"
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"Fabric3" = "*"
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paramiko = "*"
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python-genomespaceclient = "*"
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[requires]
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python_version = "2.7"
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@@ -0,0 +1,125 @@
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amqp==2.2.2
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appdirs==1.4.3
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asn1crypto==0.24.0
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babel==2.5.3
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bagit==1.6.4
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bcrypt==3.1.4
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bdbag==1.2.4
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beaker==1.9.0
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bioblend==0.10.0
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bleach==2.1.3
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boltons==18.0.0
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boto==2.46.1
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bunch==1.0.1
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bx-python==0.8.1
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bz2file==0.98; python_version < '3.3'
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certifi==2018.1.18
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cffi==1.11.5
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chardet==3.0.4
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cheetah3==3.1.0
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cliff==2.11.0
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cloudbridge==0.3.3
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cmd2==0.8.2
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contextlib2==0.5.5
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cryptography==2.2.1
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debtcollector==1.19.0
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decorator==4.2.1
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deprecation==2.0
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dictobj==0.4
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docopt==0.6.2
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docutils==0.14
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dogpile.cache==0.6.5
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enum34==1.1.6; python_version < '3'
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fabric3==1.14.post1
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funcsigs==1.0.2
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functools32==3.2.3.post2; python_version == '2.7'
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futures==3.2.0; python_version == '2.7' or python_version == '2.6'
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galaxy-sequence-utils==1.1.2
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globus-sdk==1.3.0
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h5py==2.6.0
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html5lib==1.0.1
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idna==2.6
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ipaddress==1.0.19; python_version < '3.3'
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iso8601==0.1.12
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jmespath==0.9.3
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jsonpatch==1.21
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jsonpointer==2.0
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jsonschema==2.6.0
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keystoneauth1==3.4.0
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kombu==4.1.0
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mako==1.0.7
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markupsafe==1.0
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mercurial==3.7.3; python_version < '3'
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monotonic==1.4
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msgpack==0.5.6
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munch==2.2.0
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netaddr==0.7.19
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netifaces==0.10.6
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nose==1.3.7
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numpy==1.14.2
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openstacksdk==0.12.0
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os-client-config==1.29.0
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os-service-types==1.2.0
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osc-lib==1.10.0
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oslo.config==5.2.0
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oslo.i18n==3.20.0
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oslo.serialization==2.25.0
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oslo.utils==3.36.0
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packaging==17.1
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paramiko==2.4.1
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parsley==1.3
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paste==2.0.3
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pastedeploy==1.5.2
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pastescript==2.0.2
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pbr==3.1.1
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positional==1.2.1
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prettytable==0.7.2
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psutil==5.4.3
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pulsar-galaxy-lib==0.8.3
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py2-ipaddress==3.4.1
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pyasn1==0.4.2
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pycparser==2.18
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pycrypto==2.6.1
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pykwalify==1.6.1
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pynacl==1.2.1
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pyparsing==2.2.0
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pyperclip==1.6.0
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pysam==0.14.1
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python-cinderclient==2.0.1
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python-dateutil==2.7.2
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python-genomespaceclient==1.0.0
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python-glanceclient==2.6.0
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python-keystoneclient==3.10.0
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python-lzo==1.11
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python-neutronclient==6.1.0
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python-novaclient==7.0.0
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python-swiftclient==3.3.0
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pytz==2018.3
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pyyaml==3.12
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repoze.lru==0.7
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requests-toolbelt==0.8.0
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requests==2.18.4
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requestsexceptions==1.4.0
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retrying==1.3.3
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rfc3986==1.1.0
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routes==2.4.1
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simplejson==3.13.2
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six==1.11.0
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sqlalchemy-migrate==0.11.0
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sqlalchemy-utils==0.33.1
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sqlalchemy==1.2.5
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sqlparse==0.2.4
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stevedore==1.28.0
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subprocess32==3.2.7
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svgwrite==1.1.12
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tempita==0.5.2
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tzlocal==1.5.1
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unicodecsv==0.14.1; python_version < '3.0'
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urllib3==1.22
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uwsgi==2.0.17
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vine==1.1.4
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warlock==1.2.0
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webencodings==0.5.1
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webob==1.4.2
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whoosh==2.7.4
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wrapt==1.10.11
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@@ -31,7 +31,8 @@ done
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THIS_DIRECTORY="$(cd "$(dirname "$0")" > /dev/null && pwd)"
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ENVS="develop
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flake8"
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flake8
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default"
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for env in $ENVS
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do
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@@ -1,70 +0,0 @@
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# bx-python and dependencies
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numpy
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python-lzo
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bx-python
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# packages with C extensions
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MarkupSafe
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PyYAML
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SQLAlchemy
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mercurial; python_version < '3.0'
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pycrypto
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# Flexible BAM index naming is new to main pysam
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pysam>=0.13
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# pure Python packages
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bleach
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bz2file; python_version < '3.3'
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ipaddress; python_version < '3.3'
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boltons
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Paste
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PasteDeploy
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docutils
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repoze.lru
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Routes
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WebOb
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Mako
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pytz
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Babel
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Beaker
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dictobj
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nose
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Parsley
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six
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Whoosh
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galaxy_sequence_utils
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h5py
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packaging
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# Cheetah and dependencies
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Cheetah3
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Markdown
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# BioBlend and dependencies
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bioblend
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boto
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requests
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requests-toolbelt
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# kombu and dependencies
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kombu
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# Pulsar requirements
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psutil
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pulsar-galaxy-lib>=0.8.3
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# sqlalchemy-migrate and dependencies
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sqlalchemy-migrate
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decorator
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Tempita
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sqlparse
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pbr
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# svgwrite and dependencies
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svgwrite
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pyparsing
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# Fabric and dependencies
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Fabric3
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paramiko
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ecdsa
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Reference in New Issue
Block a user