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Added in srst2 recipes for 0.1.4.6 and 0.2.0 #3767
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#!/bin/bash | ||
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python setup.py install |
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package: | ||
name: srst2 | ||
version: 0.1.4.6 | ||
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source: | ||
fn: v0.1.6.tar.gz | ||
url: https://github.com/katholt/srst2/archive/v0.1.6.tar.gz | ||
sha256: 24cbd03933d4cc14bbfa7f8a073c9b0caafb13d55afb3bfa25f8b093fc5bc615 | ||
patches: | ||
- use_setuptools.patch | ||
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build: | ||
number: 0 | ||
skip: True #[not py27] | ||
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requirements: | ||
build: | ||
- python | ||
- setuptools | ||
- numpy >=1.7.1 | ||
- scipy >=0.12.0 | ||
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run: | ||
- python | ||
- numpy >=1.7.1 | ||
- scipy >=0.12.0 | ||
- bowtie2 >=2.1.0 | ||
- samtools ==0.1.18 | ||
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test: | ||
commands: | ||
- srst2 -h 2>&1 | grep 'SRST2 - Short Read Sequence Typer' > /dev/null | ||
- getmlst.py -h 2>&1 | grep 'usage' > /dev/null | ||
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about: | ||
home: https://github.com/katholt/srst2 | ||
license: BSD | ||
summary: 'Short Read Sequence Typing for Bacterial Pathogens' |
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diff --git a/setup.py b/setup.py | ||
index 37f4ca0..dbd1308 100644 | ||
--- a/setup.py | ||
+++ b/setup.py | ||
@@ -1,6 +1,6 @@ | ||
#!/usr/bin/env python | ||
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-from distutils.core import setup | ||
+from setuptools import setup | ||
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setup( | ||
name='srst2', |
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#!/bin/bash | ||
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python setup.py install |
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@@ -0,0 +1,38 @@ | ||
package: | ||
name: srst2 | ||
version: 0.2.0 | ||
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source: | ||
fn: v0.2.0.tar.gz | ||
url: https://github.com/katholt/srst2/archive/v0.2.0.tar.gz | ||
sha256: 352c59bdf00039dfa5610a4b88049a0eb114d7c2a305d4924b6e605cc6d15123 | ||
patches: | ||
- use_setuptools.patch | ||
|
||
build: | ||
number: 0 | ||
skip: True #[not py27] | ||
|
||
requirements: | ||
build: | ||
- python | ||
- setuptools | ||
- numpy >=1.7.1 | ||
- scipy >=0.12.0 | ||
|
||
run: | ||
- python | ||
- numpy >=1.7.1 | ||
- scipy >=0.12.0 | ||
- bowtie2 >=2.1.0 | ||
- samtools ==0.1.18 | ||
There was a problem hiding this comment. Choose a reason for hiding this commentThe reason will be displayed to describe this comment to others. Learn more. do you need setuptools in your run section? There was a problem hiding this comment. Choose a reason for hiding this commentThe reason will be displayed to describe this comment to others. Learn more. setuptools is just needed to be able to install the python package, from looking at other recipes it only appears to be included in the build section. |
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test: | ||
commands: | ||
- srst2 -h 2>&1 | grep 'SRST2 - Short Read Sequence Typer' > /dev/null | ||
- getmlst.py -h 2>&1 | grep 'usage' > /dev/null | ||
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||
about: | ||
home: https://github.com/katholt/srst2 | ||
license: BSD | ||
summary: 'Short Read Sequence Typing for Bacterial Pathogens' |
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---|---|---|
@@ -0,0 +1,12 @@ | ||
diff --git a/setup.py b/setup.py | ||
index 37f4ca0..dbd1308 100644 | ||
--- a/setup.py | ||
+++ b/setup.py | ||
@@ -1,6 +1,6 @@ | ||
#!/usr/bin/env python | ||
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||
-from distutils.core import setup | ||
+from setuptools import setup | ||
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setup( | ||
name='srst2', |
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Maybe this can be removed?
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Not sure what your askin. If it is in regards to the 0.1.4.6 recipe, I do need it as we have a galaxy tool for 0.1.4.6 that we would like to continue using until we have time to validate 0.2 for our purposes.