2008-01-28 14:47:00,502 - Set mitab file: global.mitab
2008-01-28 14:47:00,503 - Set PORC file: porc_gene.dat
2008-01-28 14:47:00,503 - ==================== Pre-process  ====================
2008-01-28 14:47:00,507 - Used Memory: 3 M - Free Memory: 476 M - Total Memory: 479 M - Max Memory: 1777 M
2008-01-28 14:47:03,847 - several Uniprot ac: P50591 and P50591.1
2008-01-28 14:47:04,665 - several Uniprot ac: P31658 and P31658.3
2008-01-28 14:47:04,665 - several Uniprot ac: P31658 and P31658.3
2008-01-28 14:47:05,272 - 478 different taxids in the source interactions (mitab file)
2008-01-28 14:47:05,272 - We use UniprotKB ids for proteins. Only interactions with both Uniprot ids can be used.
2008-01-28 14:47:05,272 - Among them, we only consider physical interactions between 2 different proteins from the same species.
2008-01-28 14:47:05,272 - 185024 source interactions
2008-01-28 14:47:05,272 - 5860 proteins do not have Uniprot id
2008-01-28 14:47:05,272 - 5460 interactions do not have both Uniprot ids
2008-01-28 14:47:05,272 - 1648 interactions are not physical type
2008-01-28 14:47:05,272 - 4481 interactions are self interactions
2008-01-28 14:47:05,272 - 6352 interactions are between 2 different species
2008-01-28 14:47:05,272 -    > 167380 interactions can be used among the 185024 of the mitab file ../../DB/global.mitab
2008-01-28 14:47:05,273 - Compute the mapping from proteomeIds to NCBI taxids from file /opt/appli/interoporc/results/1148/proteome_report.txt
2008-01-28 14:47:05,278 - 666 proteome ids
2008-01-28 14:47:05,278 - 663 taxids
2008-01-28 14:47:05,279 - Parse PORC data (format = one gene by line)...
2008-01-28 14:47:12,675 -    > 215733 clusters are described in the PORC data
2008-01-28 14:47:12,675 - Used Memory: 833 M - Free Memory: 339 M - Total Memory: 1172 M - Max Memory: 1777 M
2008-01-28 14:47:18,280 -    > 1524313 proteins are found in the PORC data
2008-01-28 14:47:18,280 - The predictions will be made for taxid 1148
2008-01-28 14:47:18,280 - Interactions will be predicted for NCBI taxid 1148
2008-01-28 14:47:18,280 - This NCBI taxid corresponds to 41 proteome id in Integr8 data
2008-01-28 14:47:18,280 - Used Memory: 929 M - Free Memory: 749 M - Total Memory: 1678 M - Max Memory: 1777 M
2008-01-28 14:47:18,280 - Extract interactions with at least one taxid in [1148]
2008-01-28 14:47:22,749 -    > 185 interactions are present in the source file and will be written in KnownInteractions.mitab file
2008-01-28 14:47:22,749 - Write 185 interactions in the mitab file KnownInteractions.mitab
2008-01-28 14:47:22,760 - Used Memory: 1111 M - Free Memory: 641 M - Total Memory: 1752 M - Max Memory: 1777 M
2008-01-28 14:47:22,760 - ==================== Up-cast      ====================
2008-01-28 14:47:22,760 - Combine protein-protein interactions and clusters of orthologous proteins.
2008-01-28 14:47:30,413 - several Uniprot ac: P50591 and P50591.1
2008-01-28 14:47:56,703 - 185024 source interactions
2008-01-28 14:47:56,703 - 78864 interactions miss at least one protein in the porcs
2008-01-28 14:47:56,703 - 93693 have been abstracted
2008-01-28 14:47:56,703 -    > 91886 distinct interactions between 2 clusters are constructed
2008-01-28 14:47:56,703 - Used Memory: 1547 M - Free Memory: 230 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:47:56,703 - ==================== Down-cast    ====================
2008-01-28 14:47:56,704 - Create file downCast.history.txt
2008-01-28 14:47:56,704 - Create file srcInteractionsUsed.txt
2008-01-28 14:48:01,322 -    > 1463 binary interactions predicted
2008-01-28 14:48:01,323 - 105 binary interactions have not been predicted because they are source interactions
2008-01-28 14:48:01,323 - 0 binary interactions have not been predicted because uniprot id missed
2008-01-28 14:48:01,323 - Used Memory: 1169 M - Free Memory: 608 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:48:01,323 - ==================== Post-process ====================
2008-01-28 14:48:01,323 - Create file InteroPorc.predictedInteractions.mitab
2008-01-28 14:48:01,323 - Write 1463 interactions in the mitab file InteroPorc.predictedInteractions.mitab
2008-01-28 14:48:01,352 - Used Memory: 1180 M - Free Memory: 597 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:48:01,352 - time elapsed: 1.0140834 min
2008-01-28 14:48:01,352 - ======================================================
2008-01-28 14:48:01,352 - 
2008-01-28 14:48:01,352 - Thanks for using the interoPORC tool. All informations are available on http://biodev.extra.cea.fr/interoporc/
2008-01-28 14:48:01,352 -