add snakemake remote depends

osx-whitelist.txt

@@ -2,4 +2,11 @@ snakemake
 samtools
 bwa
 pysam
+moto
+filechunkio
+httplib2
+httpretty
+xmltodict
 pybedtools
+sure
+urllib3

recipes/filechunkio/bld.bat

@@ -0,0 +1,2 @@
+"%PYTHON%" setup.py install
+if errorlevel 1 exit 1

recipes/filechunkio/build.sh

@@ -0,0 +1,3 @@
+#!/bin/bash
+
+$PYTHON setup.py install

recipes/filechunkio/meta.yaml

@@ -0,0 +1,24 @@
+package:
+  name: filechunkio
+  version: "1.6"
+
+source:
+  fn: filechunkio-1.6.tar.gz
+  url: https://pypi.python.org/packages/source/f/filechunkio/filechunkio-1.6.tar.gz
+  md5: c168a11ad94cd2ec42a219f0f8869a7b
+
+requirements:
+  build:
+    - python
+
+  run:
+    - python
+
+test:
+  imports:
+    - filechunkio
+
+about:
+  home: http://bitbucket.org/fabian/filechunkio
+  license: MIT license
+  summary: 'FileChunkIO represents a chunk of an OS-level file containing bytes data'

recipes/httplib2/bld.bat

@@ -0,0 +1,8 @@
+"%PYTHON%" setup.py install
+if errorlevel 1 exit 1
+
+:: Add more build steps here, if they are necessary.
+
+:: See
+:: http://docs.continuum.io/conda/build.html
+:: for a list of environment variables that are set during the build process.

recipes/httplib2/build.sh

@@ -0,0 +1,9 @@
+#!/bin/bash
+
+$PYTHON setup.py install
+
+# Add more build steps here, if they are necessary.
+
+# See
+# http://docs.continuum.io/conda/build.html
+# for a list of environment variables that are set during the build process.

recipes/httplib2/meta.yaml

@@ -0,0 +1,61 @@
+package:
+  name: httplib2
+  version: "0.9.2"
+
+source:
+  fn: httplib2-0.9.2.tar.gz
+  url: https://pypi.python.org/packages/source/h/httplib2/httplib2-0.9.2.tar.gz
+  md5: bd1b1445b3b2dfa7276b09b1a07b7f0e
+#  patches:
+   # List any patch files here
+   # - fix.patch
+
+# build:
+  # noarch_python: True
+  # preserve_egg_dir: True
+  # entry_points:
+    # Put any entry points (scripts to be generated automatically) here. The
+    # syntax is module:function.  For example
+    #
+    # - httplib2 = httplib2:main
+    #
+    # Would create an entry point called httplib2 that calls httplib2.main()
+
+
+  # If this is a new build for the same version, increment the build
+  # number. If you do not include this key, it defaults to 0.
+  # number: 1
+
+requirements:
+  build:
+    - python
+    - setuptools
+
+  run:
+    - python
+
+test:
+  # Python imports
+  imports:
+    - httplib2
+
+  # commands:
+    # You can put test commands to be run here.  Use this to test that the
+    # entry points work.
+
+
+  # You can also put a file called run_test.py in the recipe that will be run
+  # at test time.
+
+  # requires:
+    # Put any additional test requirements here.  For example
+    # - nose
+
+about:
+  home: https://github.com/jcgregorio/httplib2
+  license: MIT License
+  summary: 'A comprehensive HTTP client library.'
+
+# See
+# http://docs.continuum.io/conda/build.html for
+# more information about meta.yaml

recipes/httpretty/bld.bat

@@ -0,0 +1,8 @@
+"%PYTHON%" setup.py install
+if errorlevel 1 exit 1
+
+:: Add more build steps here, if they are necessary.
+
+:: See
+:: http://docs.continuum.io/conda/build.html
+:: for a list of environment variables that are set during the build process.

recipes/httpretty/build.sh

@@ -0,0 +1,9 @@
+#!/bin/bash
+
+$PYTHON setup.py install
+
+# Add more build steps here, if they are necessary.
+
+# See
+# http://docs.continuum.io/conda/build.html
+# for a list of environment variables that are set during the build process.

recipes/httpretty/meta.yaml

@@ -0,0 +1,36 @@
+package:
+  name: httpretty
+  version: "0.8.10"
+
+source:
+  fn: httpretty-0.8.10.tar.gz
+  url: https://pypi.python.org/packages/source/h/httpretty/httpretty-0.8.10.tar.gz
+  md5: 9c130b16726cbf85159574ae5761bce7
+
+requirements:
+  build:
+    - python
+    - setuptools
+
+  run:
+    - python
+
+test:
+  # Python imports
+  imports:
+    - httpretty
+
+  requires:
+    - coverage >=3.7.1
+    - httplib2 >=0.9
+    - mock >=1.0.1
+    - nose >=1.3.0
+    - requests >=2.5.1
+    - sure >=1.2.3
+    - tornado >=4.0.2
+    - urllib3 >=1.7.1
+
+about:
+  home: http://github.com/gabrielfalcao/httpretty
+  license: MIT License
+  summary: 'HTTP client mock for Python'

recipes/moto/bld.bat

@@ -0,0 +1,2 @@
+"%PYTHON%" setup.py install
+if errorlevel 1 exit 1

recipes/moto/build.sh

@@ -0,0 +1,3 @@
+#!/bin/bash
+
+$PYTHON setup.py install

recipes/moto/meta.yaml

@@ -0,0 +1,74 @@
+package:
+  name: moto
+  version: "0.4.14"
+
+source:
+  fn: moto-0.4.14.tar.gz
+  url: https://pypi.python.org/packages/source/m/moto/moto-0.4.14.tar.gz
+  md5: ce791928c59c67d699aba6eb58b9e253
+
+build:
+  entry_points:
+    - moto_server = moto.server:main
+
+requirements:
+  build:
+    - python
+    - setuptools
+    - jinja2
+    - boto >=2.20.0
+    - flask
+    - httpretty >=0.6.1
+    - requests
+    - xmltodict
+    - six
+    - werkzeug
+
+  run:
+    - python
+    - jinja2
+    - boto >=2.20.0
+    - flask
+    - httpretty >=0.6.1
+    - requests
+    - xmltodict
+    - six
+    - werkzeug
+
+test:
+  # Python imports
+  imports:
+    - moto
+    - moto.autoscaling
+    - moto.cloudformation
+    - moto.cloudwatch
+    - moto.core
+    - moto.datapipeline
+    - moto.dynamodb
+    - moto.dynamodb2
+    - moto.ec2
+    - moto.ec2.responses
+    - moto.elb
+    - moto.emr
+    - moto.glacier
+    - moto.iam
+    - moto.kinesis
+    - moto.kms
+    - moto.rds
+    - moto.rds2
+    - moto.redshift
+    - moto.route53
+    - moto.s3
+    - moto.s3bucket_path
+    - moto.ses
+    - moto.sns
+    - moto.sqs
+    - moto.sts
+
+  commands:
+    - moto_server --help
+
+about:
+  home: https://github.com/spulec/moto
+  license: Apache Software License
+  summary: 'A library that allows your python tests to easily mock out the boto library'

recipes/snakemake/meta.yaml

@@ -15,6 +15,9 @@ requirements:
   run:
     - python >=3.3
     - docutils
+    - boto
+    - moto
+    - filechunkio
     - pyyaml
 test:
     imports:

recipes/sure/bld.bat

@@ -0,0 +1,8 @@
+"%PYTHON%" setup.py install
+if errorlevel 1 exit 1
+
+:: Add more build steps here, if they are necessary.
+
+:: See
+:: http://docs.continuum.io/conda/build.html
+:: for a list of environment variables that are set during the build process.

recipes/sure/build.sh

@@ -0,0 +1,9 @@
+#!/bin/bash
+
+$PYTHON setup.py install
+
+# Add more build steps here, if they are necessary.
+
+# See
+# http://docs.continuum.io/conda/build.html
+# for a list of environment variables that are set during the build process.

recipes/sure/meta.yaml

@@ -0,0 +1,66 @@
+package:
+  name: sure
+  version: "1.2.24"
+
+source:
+  fn: sure-1.2.24.tar.gz
+  url: https://pypi.python.org/packages/source/s/sure/sure-1.2.24.tar.gz
+  md5: a396cc3c71d551bfdb9bc45363ca05da
+#  patches:
+   # List any patch files here
+   # - fix.patch
+
+# build:
+  # noarch_python: True
+  # preserve_egg_dir: True
+  # entry_points:
+    # Put any entry points (scripts to be generated automatically) here. The
+    # syntax is module:function.  For example
+    #
+    # - sure = sure:main
+    #
+    # Would create an entry point called sure that calls sure.main()
+
+
+  # If this is a new build for the same version, increment the build
+  # number. If you do not include this key, it defaults to 0.
+  # number: 1
+
+requirements:
+  build:
+    - python
+    - setuptools
+    - mock
+    - six
+
+  run:
+    - python
+    - mock
+    - six
+
+test:
+  # Python imports
+  imports:
+    - sure
+
+  # commands:
+    # You can put test commands to be run here.  Use this to test that the
+    # entry points work.
+
+
+  # You can also put a file called run_test.py in the recipe that will be run
+  # at test time.
+
+  requires:
+    - nose
+    # Put any additional test requirements here.  For example
+    # - nose
+
+about:
+  home: http://github.com/gabrielfalcao/sure
+  license: GNU General Public License v3 or later (GPLv3+)
+  summary: 'utility belt for automated testing in python for python'
+
+# See
+# http://docs.continuum.io/conda/build.html for
+# more information about meta.yaml

recipes/urllib3/bld.bat

@@ -0,0 +1,8 @@
+"%PYTHON%" setup.py install
+if errorlevel 1 exit 1
+
+:: Add more build steps here, if they are necessary.
+
+:: See
+:: http://docs.continuum.io/conda/build.html
+:: for a list of environment variables that are set during the build process.

recipes/urllib3/build.sh

@@ -0,0 +1,9 @@
+#!/bin/bash
+
+$PYTHON setup.py install
+
+# Add more build steps here, if they are necessary.
+
+# See
+# http://docs.continuum.io/conda/build.html
+# for a list of environment variables that are set during the build process.