Still looking for an example tool_dependencies.xml to install R Cairo package
Farther update.
package_cairo_1_12_14 needs to be at the same level as package_r_3_1_2 inside
of setup_r_environment without the set_environment_for_install
I am no longer getting cairo.h No but am still getting
checking if R was compiled with the RConn patch... no
...
checking for ATS font support in Cairo... no
....
checking whether Cairo programs can be compiled...
ERROR: configuration failed for package ‘Cairo’
Again updated tool_dependencies.xml attached
Thanks
Christian
________________________________
From: galaxy-dev [[email protected]] on behalf of
Christian Brenninkmeijer [[email protected]]
Sent: Wednesday, August 26, 2015 10:18 AM
To: galaxy-dev [[email protected]]
Subject: [galaxy-dev] Installing Cairo into Gakaxy
Hi All,
Has anyone got a working example tool_dependencies.xml to install the Cairo
package into R.
(I actually need a package that depends on R Cairo but the current issue is
Cairo)
I am having the cairo.h not found issue
I have cloned
https://toolshed.g2.bx.psu.edu/view/devteam/package_cairo_1_12_14/b39299b4b6e1
(and its dependencies)
As well as
https://toolshed.g2.bx.psu.edu/view/iuc/package_r_3_1_2/9f2fddb9d6e2
I am trying to use <action type="setup_r_environment">
But can not get the package_cairo to be seen by the R
I have tried <action type="set_environment_for_install"> both inside and
outside of the setup_r_environment but it does not appear to be working,
Full attempted tool_dependencies.xml attached,
Thanks in advance
Christian
University of Manchester
<?xml version="1.0"?>
<tool_dependency>
<package name="R" version="3.1.2">
<repository toolshed="http://l-unxx4770.it.manchester.ac.uk:9009/"; name="package_r_3_1_2" owner="brenninc"
changeset_revision="6c7b9b5dfcae" prior_installation_required="True" />
</package>
<package name="pixman" version="0.32.4">
<repository changeset_revision="b9960f5771e8" name="package_pixman_0_32_4" owner="brenninc" prior_installation_required="True"
toolshed="http://l-unxx4770.it.manchester.ac.uk:9009/"; />
</package>
<package name="libpng" version="1.6.7">
<repository changeset_revision="a41a47c4d03b" name="package_libpng_1_6_7" owner="brenninc" prior_installation_required="True"
toolshed="http://l-unxx4770.it.manchester.ac.uk:9009/"; />
</package>
<package name="freetype" version="2.5.2">
<repository changeset_revision="3fdbe217abcb" name="package_freetype_2_5_2" owner="brenninc" prior_installation_required="True"
toolshed="http://l-unxx4770.it.manchester.ac.uk:9009/"; />
</package>
<package name="cairo" version="1.12.14">
<repository changeset_revision="5ff3cd88e260" name="package_cairo_1_12_14" owner="brenninc" prior_installation_required="True"
toolshed="http://l-unxx4770.it.manchester.ac.uk:9009/"; />
</package>
<package name="R_cairo" version="0.0.1">
<install version="1.0">
<actions>
<action type="setup_r_environment">
<repository changeset_revision="6c7b9b5dfcae" name="package_r_3_1_2" owner="brenninc" toolshed="http://l-unxx4770.it.manchester.ac.uk:9009/";>
<package name="R" version="3.1.2" />
</repository>
<repository revision="5ff3cd88e260" name="package_cairo_1_12_14" owner="brenninc" prior_installation_required="True"
toolshed="http://l-unxx4770.it.manchester.ac.uk:9009/";>
<package name="cairo" version="1.12.14" />
</repository>
<package>https://cran.r-project.org/src/contrib/Cairo_1.5-8.tar.gz</package>
</action>
</actions>
</install>
</package>
</tool_dependency>
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