Mercurial > repos > jankanis > blast2html
comparison tool_dependencies.xml @ 53:4217bb9cf1d3
depend on python 3; fix internal links with multiple iterations
| author | Jan Kanis <jan.code@jankanis.nl> |
|---|---|
| date | Mon, 26 May 2014 13:07:13 +0200 |
| parents | b15a20c2372a |
| children | 6d96d48a10f8 |
comparison
equal
deleted
inserted
replaced
| 52:d6c7b5de2833 | 53:4217bb9cf1d3 |
|---|---|
| 13 <package name="libxslt" version="1.1.28"> | 13 <package name="libxslt" version="1.1.28"> |
| 14 <repository name="package_libxslt_1_1_28" owner="devteam" prior_installation_required="True" | 14 <repository name="package_libxslt_1_1_28" owner="devteam" prior_installation_required="True" |
| 15 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="039b04adcfee" /> | 15 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="039b04adcfee" /> |
| 16 </package> | 16 </package> |
| 17 | 17 |
| 18 <package name="argparse" version="1.2.1"> | 18 <package name="python3" version="3.4.1"> |
| 19 <install version="1.0"> | 19 <repository name="package_python3_4" owner="jankanis" prior_installation_required="True" |
| 20 <actions> | 20 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="9dbfc4fcef0a" /> |
| 21 <action type="setup_virtualenv"> | |
| 22 argparse == 1.2.1 | |
| 23 </action> | |
| 24 </actions> | |
| 25 </install> | |
| 26 <readme>The Python argparse library. This is included in the stdlib for python 2.7 and up, but not for 2.6</readme> | |
| 27 </package> | 21 </package> |
| 28 | 22 |
| 29 <package name="python_six" version="1.3.0"> | 23 <package name="blast2html_venv" version="0.1"> |
| 30 <install version="1.0"> | |
| 31 <actions> | |
| 32 <action type="setup_virtualenv"> | |
| 33 six >= 1.3.0 | |
| 34 </action> | |
| 35 </actions> | |
| 36 </install> | |
| 37 <readme>The Python six library for python 2/3 compatibility</readme> | |
| 38 </package> | |
| 39 | |
| 40 <package name="lxml" version="2.2.3"> | |
| 41 <install version="1.0"> | 24 <install version="1.0"> |
| 42 <actions> | 25 <actions> |
| 43 <action type="set_environment_for_install"> | 26 <action type="set_environment_for_install"> |
| 44 <repository name="package_cython_0_20_1" owner="iuc" | 27 <repository name="package_cython_0_20_1" owner="iuc" |
| 45 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="c3a8c46fcb97"> | 28 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="c3a8c46fcb97"> |
| 51 </repository> | 34 </repository> |
| 52 <repository name="package_libxslt_1_1_28" owner="devteam" | 35 <repository name="package_libxslt_1_1_28" owner="devteam" |
| 53 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="039b04adcfee"> | 36 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="039b04adcfee"> |
| 54 <package name="libxslt" version="1.1.28" /> | 37 <package name="libxslt" version="1.1.28" /> |
| 55 </repository> | 38 </repository> |
| 39 <repository name="python3" owner="jankanis"> | |
| 40 <package name="python3" version="3.4.1" /> | |
| 41 </repository> | |
| 56 </action> | 42 </action> |
| 57 <action type="shell_command"> | 43 |
| 58 echo '*******************************************************************************' | 44 <action type="shell_command"> |
| 59 echo $PATH | 45 # Unset any saved environment settings from parent virtual |
| 60 echo xslt-config at: `which -a xslt-config` | 46 # environments, e.g. for python 2 or if Galaxy itself is running |
| 61 </action> | 47 # from within a virtual environment. |
| 62 <action type="setup_virtualenv"> | 48 unset _OLD_VIRTUAL_PATH; unset _OLD_VIRTUAL_PYTHONHOME |
| 63 lxml == 2.2.3 | 49 pyvenv blast2html_venv |
| 50 . blast2html_venv/bin/activate | |
| 51 pip3 install lxml jinja2 | |
| 52 </action> | |
| 53 | |
| 54 <action type="set_environment"> | |
| 55 <environment_variable name="PYTHONPATH" action="prepend_to">$INSTALL_DIR/lib/python3.4/site-packages</environment_variable> | |
| 64 </action> | 56 </action> |
| 65 </actions> | 57 </actions> |
| 66 </install> | 58 </install> |
| 67 <readme>The Python lxml library</readme> | 59 <readme>A Python 3 virtual environment that includes the python packages blast2html depends on, which are lxml and jinja2.</readme> |
| 68 </package> | |
| 69 | |
| 70 <package name="jinja2" version="2.7.2"> | |
| 71 <install version="1.0"> | |
| 72 <actions> | |
| 73 <action type="setup_virtualenv"> | |
| 74 jinja2 == 2.7.2 | |
| 75 </action> | |
| 76 </actions> | |
| 77 </install> | |
| 78 <readme>The Jinja 2 template engine for Python</readme> | |
| 79 </package> | 60 </package> |
| 80 | 61 |
| 81 </tool_dependency> | 62 </tool_dependency> |