2008-01-28 14:50:03,138 - Set mitab file: global.mitab
2008-01-28 14:50:03,139 - Set PORC file: porc_gene.dat
2008-01-28 14:50:03,139 - ==================== Pre-process  ====================
2008-01-28 14:50:03,143 - Used Memory: 3 M - Free Memory: 476 M - Total Memory: 479 M - Max Memory: 1777 M
2008-01-28 14:50:06,481 - several Uniprot ac: P50591 and P50591.1
2008-01-28 14:50:07,298 - several Uniprot ac: P31658 and P31658.3
2008-01-28 14:50:07,299 - several Uniprot ac: P31658 and P31658.3
2008-01-28 14:50:07,907 - 478 different taxids in the source interactions (mitab file)
2008-01-28 14:50:07,907 - We use UniprotKB ids for proteins. Only interactions with both Uniprot ids can be used.
2008-01-28 14:50:07,907 - Among them, we only consider physical interactions between 2 different proteins from the same species.
2008-01-28 14:50:07,907 - 185024 source interactions
2008-01-28 14:50:07,907 - 5860 proteins do not have Uniprot id
2008-01-28 14:50:07,907 - 5460 interactions do not have both Uniprot ids
2008-01-28 14:50:07,907 - 1648 interactions are not physical type
2008-01-28 14:50:07,907 - 4481 interactions are self interactions
2008-01-28 14:50:07,907 - 6352 interactions are between 2 different species
2008-01-28 14:50:07,907 -    > 167380 interactions can be used among the 185024 of the mitab file ../../DB/global.mitab
2008-01-28 14:50:07,908 - Compute the mapping from proteomeIds to NCBI taxids from file /opt/appli/interoporc/results/4932/proteome_report.txt
2008-01-28 14:50:07,913 - 666 proteome ids
2008-01-28 14:50:07,913 - 663 taxids
2008-01-28 14:50:07,914 - Parse PORC data (format = one gene by line)...
2008-01-28 14:50:15,562 -    > 215733 clusters are described in the PORC data
2008-01-28 14:50:15,563 - Used Memory: 751 M - Free Memory: 517 M - Total Memory: 1268 M - Max Memory: 1777 M
2008-01-28 14:50:18,695 -    > 1524313 proteins are found in the PORC data
2008-01-28 14:50:18,695 - The predictions will be made for taxid 4932
2008-01-28 14:50:18,695 - Interactions will be predicted for NCBI taxid 4932
2008-01-28 14:50:18,695 - This NCBI taxid corresponds to 40 proteome id in Integr8 data
2008-01-28 14:50:18,695 - Used Memory: 943 M - Free Memory: 320 M - Total Memory: 1263 M - Max Memory: 1777 M
2008-01-28 14:50:18,695 - Extract interactions with at least one taxid in [4932]
2008-01-28 14:50:42,906 -    > 56014 interactions are present in the source file and will be written in KnownInteractions.mitab file
2008-01-28 14:50:42,907 - Write 56014 interactions in the mitab file KnownInteractions.mitab
2008-01-28 14:50:48,975 - Used Memory: 1367 M - Free Memory: 443 M - Total Memory: 1810 M - Max Memory: 1810 M
2008-01-28 14:50:48,976 - ==================== Up-cast      ====================
2008-01-28 14:50:48,976 - Combine protein-protein interactions and clusters of orthologous proteins.
2008-01-28 14:50:58,359 - several Uniprot ac: P50591 and P50591.1
2008-01-28 14:51:28,413 - 185024 source interactions
2008-01-28 14:51:28,413 - 78864 interactions miss at least one protein in the porcs
2008-01-28 14:51:28,413 - 93693 have been abstracted
2008-01-28 14:51:28,413 -    > 91886 distinct interactions between 2 clusters are constructed
2008-01-28 14:51:28,413 - Used Memory: 1466 M - Free Memory: 311 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:51:28,413 - ==================== Down-cast    ====================
2008-01-28 14:51:28,413 - Create file downCast.history.txt
2008-01-28 14:51:28,414 - Create file srcInteractionsUsed.txt
2008-01-28 14:51:33,468 -    > 1459 binary interactions predicted
2008-01-28 14:51:33,468 - 45616 binary interactions have not been predicted because they are source interactions
2008-01-28 14:51:33,468 - 0 binary interactions have not been predicted because uniprot id missed
2008-01-28 14:51:33,469 - Used Memory: 1071 M - Free Memory: 706 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:51:33,469 - ==================== Post-process ====================
2008-01-28 14:51:33,469 - Create file InteroPorc.predictedInteractions.mitab
2008-01-28 14:51:33,469 - Write 1459 interactions in the mitab file InteroPorc.predictedInteractions.mitab
2008-01-28 14:51:33,493 - Used Memory: 1082 M - Free Memory: 695 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:51:33,494 - time elapsed: 1.5058334 min
2008-01-28 14:51:33,494 - ======================================================
2008-01-28 14:51:33,494 - 
2008-01-28 14:51:33,494 - Thanks for using the interoPORC tool. All informations are available on http://biodev.extra.cea.fr/interoporc/
2008-01-28 14:51:33,494 -