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Full Python dependencies update #9697

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merged 1 commit into from May 3, 2020
Merged

Full Python dependencies update #9697

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6 changes: 3 additions & 3 deletions lib/galaxy/dependencies/pipfiles/default/Pipfile
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Expand Up @@ -44,7 +44,7 @@ Mercurial = "*"
nodeenv = "*"
pycryptodome = "*"
pyuwsgi = "*"
pysam = "==0.15.2"
pysam = "*"
bdbag = "*"
bleach = "*"
cwltool = "==1.0.20191225192155"
Expand Down Expand Up @@ -74,15 +74,15 @@ bioblend = "*"
boto = "*"
kombu = "*"
psutil = "*"
pulsar-galaxy-lib = "==0.14.0.dev1"
pulsar-galaxy-lib = "==0.14.0.dev3"
sqlalchemy-migrate = "*"
sqlparse = "*"
svgwrite = "*"
pyparsing = "*"
"Fabric3" = "*"
paramiko = "*"
cloudbridge = "*"
social_auth_core = {version = "==3.1.0+gx0", extras = ['openidconnect']}
social_auth_core = {version = "==3.3.0", extras = ['openidconnect']}
cloudauthz = "==0.6.0"
gxformat2 = "*"

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13 changes: 7 additions & 6 deletions lib/galaxy/dependencies/pipfiles/default/pinned-dev-requirements.txt
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@@ -1,15 +1,16 @@
-i https://wheels.galaxyproject.org/simple
--extra-index-url https://pypi.python.org/simple
alabaster==0.7.12
atomicwrites==1.3.0
atomicwrites==1.4.0
attrs==19.3.0
babel==2.8.0
certifi==2020.4.5.1
chardet==3.0.4
commonmark==0.9.1
configparser==4.0.2 ; python_version < '3.2'
contextlib2==0.6.0.post1 ; python_version < '3.5'
coverage==5.0.4
cookies==2.2.1 ; python_version < '3.4'
coverage==5.1
deprecated==1.2.9
docutils==0.15.2
funcsigs==1.0.2 ; python_version < '3.3'
Expand All @@ -18,7 +19,7 @@ gunicorn==19.10.0
idna==2.9
imagesize==1.2.0
importlib-metadata==1.6.0 ; python_version < '3.8'
jinja2==2.11.1
jinja2==2.11.2
lxml==4.5.0
markdown==3.1.1
markupsafe==1.1.1
Expand Down Expand Up @@ -46,7 +47,7 @@ pytest-postgresql==1.4.1
pytest-pythonpath==0.7.3
pytest==4.6.9
python-irodsclient==0.8.2
pytz==2019.3
pytz==2020.1
recommonmark==0.6.0
requests==2.23.0
responses==0.10.14
Expand All @@ -58,10 +59,10 @@ sphinx-markdown-tables==0.0.12
sphinx-rtd-theme==0.4.3
sphinx==1.8.5
sphinxcontrib-websupport==1.1.2
testfixtures==6.14.0
testfixtures==6.14.1
twill==2.0
typing==3.7.4.1 ; python_version < '3.5'
urllib3==1.25.8
urllib3==1.25.9
watchdog==0.10.2
wcwidth==0.1.9
wrapt==1.12.1
Expand Down
25 changes: 13 additions & 12 deletions lib/galaxy/dependencies/pipfiles/default/pinned-requirements.txt
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Expand Up @@ -23,7 +23,7 @@ bcrypt==3.1.7
bdbag==1.5.6
beaker==1.11.0
bioblend==0.13.0
bleach==3.1.4
bleach==3.1.5
boltons==20.1.0
boto3==1.9.114
boto==2.49.0
Expand All @@ -43,16 +43,16 @@ cmd2==0.8.9
coloredlogs==14.0
configparser==4.0.2 ; python_version < '3.2'
contextlib2==0.6.0.post1 ; python_version < '3.5'
cryptography==2.9
cryptography==2.9.2
cwltool==1.0.20191225192155
debtcollector==1.22.0
decorator==4.4.2
deprecated==1.2.9
deprecation==2.0.7
deprecation==2.1.0
dictobj==0.4
docopt==0.6.2
docutils==0.15.2
dogpile.cache==0.9.0
dogpile.cache==0.9.1
ecdsa==0.15
enum34==1.1.10 ; python_version < '3.4'
fabric3==1.14.post1
Expand All @@ -63,11 +63,11 @@ futures==3.3.0 ; python_version == '2.6' or python_version == '2.7'
galaxy-sequence-utils==1.1.5
google-api-python-client==1.7.8
google-auth-httplib2==0.0.3
google-auth==1.13.1
google-auth==1.14.1
gxformat2==0.11.1
h5py==2.10.0
httplib2==0.17.2
humanfriendly==8.1
httplib2==0.17.3
humanfriendly==8.2
idna==2.9
importlib-metadata==1.6.0 ; python_version < '3.8'
ipaddress==1.0.23 ; python_version < '3.3'
Expand All @@ -85,7 +85,7 @@ lxml==4.5.0
mako==1.1.2
markdown==3.1.1
markupsafe==1.1.1
mercurial==5.3.2
mercurial==5.4
mistune==0.8.4
monotonic==1.5
msgpack==1.0.0
Expand Down Expand Up @@ -136,7 +136,7 @@ pyopenssl==19.1.0
pyparsing==2.4.7
pyperclip==1.8.0
pyrsistent==0.16.0
pysam==0.15.2
pysam==0.15.4
pysftp==0.2.9
python-cinderclient==4.0.0
python-dateutil==2.8.1
Expand All @@ -147,7 +147,7 @@ python-neutronclient==6.9.0
python-novaclient==11.0.0
python-openid==2.2.5 ; python_version < '3.0'
python-swiftclient==3.6.0
pytz==2019.3
pytz==2020.1
pyuwsgi==2.0.18.post0
pyyaml==5.3.1
rdflib-jsonld==0.4.0
Expand All @@ -173,7 +173,7 @@ six==1.11.0
social-auth-core[openidconnect]==3.3.0
sortedcontainers==2.1.0
sqlalchemy-migrate==0.13.0
sqlalchemy-utils==0.36.3
sqlalchemy-utils==0.36.4
sqlalchemy==1.3.16
sqlparse==0.3.1
stevedore==1.32.0
Expand All @@ -185,8 +185,9 @@ typing-extensions==3.7.4.2
typing==3.7.4.1 ; python_version < '3.5'
tzlocal==2.0.0
unicodecsv==0.14.1 ; python_version < '3.0'
unidecode==1.1.1 ; python_version < '3.0'
uritemplate==3.0.1
urllib3==1.25.8
urllib3==1.25.9
vine==1.3.0
warlock==1.3.3
wcwidth==0.1.9
Expand Down