Mercurial > repos > lparsons > htseq_count

annotate fabfile.py @ 11:1a69449ae025

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Setup numpy environment to install htseq
author lparsons
date Tue, 05 Nov 2013 11:07:33 -0500
parents 65c91537862c
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
8
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
1 from fabric.api import local
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
2 from fabric.operations import prompt
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
3 import os
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
4
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
5
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
6 def package():
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
7 '''
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
8 Pacakge for upload to toolshed
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
9 packaging 'test' version (default) uses local directory
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
10 otherwise, specify a mercurial tag to package
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
11 '''
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
12 package_dir = 'package'
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
13 base_filename = os.path.join(package_dir, 'htseq-count')
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
14 version = prompt("Enter version number for package [test]:")
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
15 revision_option = ''
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
16 if version != '':
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
17 revision_option = '-r "%s"' % version
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
18 else:
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
19 version = 'test'
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
20 version_filename = '%s_%s.tar.gz' % (base_filename, version)
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
21 local('mkdir -p %s' % package_dir)
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
22 local('rm -f %s' % version_filename)
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
23 if version == 'test':
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
24 local('tar czvf %s --exclude "fabfile.*" --exclude "%s" --exclude ".hg*" *' % (version_filename, package_dir))
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
25 else:
65c91537862c Updated to HTSeq 0.5.4p5, use tool shed repository dependencies
lparsons
parents:
diff changeset
26 local('hg archive -t tgz %s -X "fabfile.*" -X "package" -X ".hg*" -p . "%s"' % (revision_option, version_filename))