Mercurial > repos > jankanis > blast2html
comparison tool_dependencies.xml @ 92:dede77ad7069
update to latest zlib, remove workaround for missing zlib env variable
| author | Jan Kanis <jan.code@jankanis.nl> |
|---|---|
| date | Tue, 24 Jun 2014 18:12:19 +0200 |
| parents | 20639b08d781 |
| children | 15b289ffdf2b |
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| 91:20639b08d781 | 92:dede77ad7069 |
|---|---|
| 10 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="039b04adcfee" /> | 10 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="039b04adcfee" /> |
| 11 </package> | 11 </package> |
| 12 | 12 |
| 13 <package name="zlib" version="1.2.8"> | 13 <package name="zlib" version="1.2.8"> |
| 14 <repository name="package_zlib_1_2_8" owner="iuc" prior_installation_required="True" | 14 <repository name="package_zlib_1_2_8" owner="iuc" prior_installation_required="True" |
| 15 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="31f1e69aae89" /> | 15 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="63a4a902cda2" /> |
| 16 </package> | 16 </package> |
| 17 | 17 |
| 18 <package name="blast2html_venv" version="0.2"> | 18 <package name="blast2html_venv" version="0.2"> |
| 19 <install version="1.0"> | 19 <install version="1.0"> |
| 20 <actions> | 20 <actions> |
| 26 <repository name="package_libxslt_1_1_28" owner="devteam" | 26 <repository name="package_libxslt_1_1_28" owner="devteam" |
| 27 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="039b04adcfee"> | 27 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="039b04adcfee"> |
| 28 <package name="libxslt" version="1.1.28" /> | 28 <package name="libxslt" version="1.1.28" /> |
| 29 </repository> | 29 </repository> |
| 30 <repository name="package_zlib_1_2_8" owner="iuc" | 30 <repository name="package_zlib_1_2_8" owner="iuc" |
| 31 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="31f1e69aae89"> | 31 toolshed="http://toolshed.g2.bx.psu.edu" changeset_revision="63a4a902cda2"> |
| 32 <package name="zlib" version="1.2.8" /> | 32 <package name="zlib" version="1.2.8" /> |
| 33 </repository> | 33 </repository> |
| 34 </action> | 34 </action> |
| 35 | 35 |
| 36 <action type="setup_virtualenv"> | 36 <action type="setup_virtualenv"> |
| 40 </action> | 40 </action> |
| 41 | 41 |
| 42 <!-- install lxml manually, as the setup_virtualenv action does not include the environment | 42 <!-- install lxml manually, as the setup_virtualenv action does not include the environment |
| 43 from set_environment_for_install but shell_command does --> | 43 from set_environment_for_install but shell_command does --> |
| 44 <action type="shell_command"> | 44 <action type="shell_command"> |
| 45 export LIBRARY_PATH="$ZLIB_ROOT_PATH/lib:$LIBRARY_PATH" | |
| 46 $INSTALL_DIR/venv/bin/pip install lxml==3.3.5 | 45 $INSTALL_DIR/venv/bin/pip install lxml==3.3.5 |
| 47 </action> | 46 </action> |
| 48 | 47 |
| 49 <action type="set_environment"> | 48 <action type="set_environment"> |
| 50 <!-- add libxml2 library path so the runtime can find the shared library --> | 49 <!-- add libxml2/zlib library paths so the runtime can find the shared libraries --> |
| 51 <environment_variable name="LD_LIBRARY_PATH" action="prepend_to">$ENV[LD_LIBRARY_PATH]</environment_variable> | 50 <environment_variable name="LD_LIBRARY_PATH" action="prepend_to">$ENV[LD_LIBRARY_PATH]</environment_variable> |
| 52 </action> | 51 </action> |
| 53 </actions> | 52 </actions> |
| 54 </install> | 53 </install> |
| 55 <readme>A Python 2 virtual environment that includes the python packages blast2html depends on, which are lxml and jinja2.</readme> | 54 <readme>A Python 2 virtual environment that includes the python packages blast2html depends on, which are lxml and jinja2.</readme> |