ABGC modules: Difference between revisions
| Line 11: | Line 11: | ||
* [[bwa_5.9 | bwa/0.5.9]] | * [[bwa_5.9 | bwa/0.5.9]] | ||
* [[bwa_7.5 | bwa/0.7.5a]] | * [[bwa_7.5 | bwa/0.7.5a]] | ||
* cegma/2.4 | * [[cegma_2.4 | cegma/2.4]] | ||
* [[exonerate_2.2.0 | exonerate/2.2.0-x86_64]] | * [[exonerate_2.2.0 | exonerate/2.2.0-x86_64]] | ||
* geneid/1.4.4 | * [[geneid_1.4.4 | geneid/1.4.4]] | ||
* genewise/2.2.3-rc7 | * [[genewise_2.2.3 | genewise/2.2.3-rc7]] | ||
* hmmer/3.1b1 | * [[hmmer_3.1 | hmmer/3.1b1]] | ||
* [[maker_2.2.8 | maker/2.28]] | * [[maker_2.2.8 | maker/2.28]] | ||
* Perl/5.10.1_wur | * [[Perl5.10_WUR_module | Perl/5.10.1_wur]] | ||
* R/3.0.2_wur | * [[R3.0.2_WUR_module | R/3.0.2_wur]] | ||
* [[RepeatMasker_4.0.3 | RepeatMasker/4.0.3]] | * [[RepeatMasker_4.0.3 | RepeatMasker/4.0.3]] | ||
* RepeatModeler/1.0.7 | * [[RepeatModeler_1.0.7 | RepeatModeler/1.0.7 | ||
* snap/2013-11-29 | * [[snap | snap/2013-11-29]] | ||
=== Adding a custom module directory to your environment === | === Adding a custom module directory to your environment === | ||
Revision as of 13:00, 21 December 2013
All ABGC modules can be found in:
/cm/shared/apps/WUR/ABGC/modulefiles
Modules available for ABGC
- asreml/3.0fl-64
- augustus/2.7
- BLAST+/2.2.28
- blat/v35
- bwa/0.5.9
- bwa/0.7.5a
- cegma/2.4
- exonerate/2.2.0-x86_64
- geneid/1.4.4
- genewise/2.2.3-rc7
- hmmer/3.1b1
- maker/2.28
- Perl/5.10.1_wur
- R/3.0.2_wur
- RepeatMasker/4.0.3
- [[RepeatModeler_1.0.7 | RepeatModeler/1.0.7
- snap/2013-11-29
Adding a custom module directory to your environment
To allow the module program to find the custom module directory, the location of that directory has to be added to MODULEPATH variable.
<source lang='bash'>
export MODULEPATH=$MODULEPATH:/cm/shared/apps/WUR/ABGC/modulefiles
</source>
This can be made permanent by adding this line of code to the .bash_profile file in the root of your home folder. To then load the modified MODULEPATH variable you have to load .bash_profile again:
<source lang='bash'>
source .bash_profile
</source>
This needs to be done only once. Next time you login, .bash_profile will be loaded automatically.
You can check if the modules are found. <source lang='bash'> module avail </source> This should give output that includes something similar to this:
----------------------------------- /cm/shared/apps/WUR/ABGC/modulefiles ----------------------------------- bwa/0.5.9 bwa/0.7.5a