Dear colleagues, the TPP is now portable. The 2014/03/15 release of MASSyPup (http://lababi.bioprocess.org/index.php/lababi-software/78-massypup) contains a working Petunia/TPP installation. I tested the X!Tandem->PepXML->PeptideProphet->ProteinProphet workflow + viewing. The test files are included. Both, USB and DVD versions of TPP-MASSyPup, work for me on a 2Gb and a 8Gb RAM computer. I had to apply plenty of tweaks to get the apache2 running and the custom compiled TPP funcional. Some comments: If a Perl script does not work, adding '/usr/bin/perl' in the first line usually solves the problem. There was no .password file in the release and there is no 'crypt' command in Puppy Linux/ Precise Debian. So I disabled the Password check in tpp_gui.pl with the comment #RW. Some intermediate .xml files do not open, because the interface of the Viewing Utility has some wrong links (a '/tpp/' missing in the address), but the important stuff (tandem database search, pepXML, Peptide/ProteinProphet, viewing results) works fine. If you plan to remaster MASSyPup yourself, you have to copy the following files manually from /etc to /tmp/etc during the re-master process: passwd, group (I had to edit them manually for adding the www-data user) and the apache2 directory (which contains the Apache and TPP configuration). Please share your experiences (also pleasant ones) and bug fixes!
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