2008-01-28 14:53:12,836 - Set mitab file: global.mitab
2008-01-28 14:53:12,837 - Set PORC file: porc_gene.dat
2008-01-28 14:53:12,837 - ==================== Pre-process  ====================
2008-01-28 14:53:12,842 - Used Memory: 3 M - Free Memory: 476 M - Total Memory: 479 M - Max Memory: 1777 M
2008-01-28 14:53:16,244 - several Uniprot ac: P50591 and P50591.1
2008-01-28 14:53:17,130 - several Uniprot ac: P31658 and P31658.3
2008-01-28 14:53:17,130 - several Uniprot ac: P31658 and P31658.3
2008-01-28 14:53:17,792 - 478 different taxids in the source interactions (mitab file)
2008-01-28 14:53:17,792 - We use UniprotKB ids for proteins. Only interactions with both Uniprot ids can be used.
2008-01-28 14:53:17,792 - Among them, we only consider physical interactions between 2 different proteins from the same species.
2008-01-28 14:53:17,792 - 185024 source interactions
2008-01-28 14:53:17,792 - 5860 proteins do not have Uniprot id
2008-01-28 14:53:17,792 - 5460 interactions do not have both Uniprot ids
2008-01-28 14:53:17,792 - 1648 interactions are not physical type
2008-01-28 14:53:17,792 - 4481 interactions are self interactions
2008-01-28 14:53:17,792 - 6352 interactions are between 2 different species
2008-01-28 14:53:17,792 -    > 167380 interactions can be used among the 185024 of the mitab file ../../DB/global.mitab
2008-01-28 14:53:17,792 - Compute the mapping from proteomeIds to NCBI taxids from file /opt/appli/interoporc/results/3702/proteome_report.txt
2008-01-28 14:53:17,797 - 666 proteome ids
2008-01-28 14:53:17,798 - 663 taxids
2008-01-28 14:53:17,798 - Parse PORC data (format = one gene by line)...
2008-01-28 14:53:26,575 -    > 215733 clusters are described in the PORC data
2008-01-28 14:53:26,575 - Used Memory: 795 M - Free Memory: 591 M - Total Memory: 1386 M - Max Memory: 1777 M
2008-01-28 14:53:30,023 -    > 1524313 proteins are found in the PORC data
2008-01-28 14:53:30,024 - The predictions will be made for taxid 3702
2008-01-28 14:53:30,024 - Interactions will be predicted for NCBI taxid 3702
2008-01-28 14:53:30,024 - This NCBI taxid corresponds to 3 proteome id in Integr8 data
2008-01-28 14:53:30,024 - Used Memory: 927 M - Free Memory: 507 M - Total Memory: 1434 M - Max Memory: 1777 M
2008-01-28 14:53:30,024 - Extract interactions with at least one taxid in [3702]
2008-01-28 14:53:37,055 -    > 1694 interactions are present in the source file and will be written in KnownInteractions.mitab file
2008-01-28 14:53:37,056 - Write 1694 interactions in the mitab file KnownInteractions.mitab
2008-01-28 14:53:37,105 - Used Memory: 1182 M - Free Memory: 428 M - Total Memory: 1610 M - Max Memory: 1777 M
2008-01-28 14:53:37,105 - ==================== Up-cast      ====================
2008-01-28 14:53:37,106 - Combine protein-protein interactions and clusters of orthologous proteins.
2008-01-28 14:53:43,096 - several Uniprot ac: P50591 and P50591.1
2008-01-28 14:54:09,581 - 185024 source interactions
2008-01-28 14:54:09,581 - 78864 interactions miss at least one protein in the porcs
2008-01-28 14:54:09,582 - 93693 have been abstracted
2008-01-28 14:54:09,582 -    > 91886 distinct interactions between 2 clusters are constructed
2008-01-28 14:54:09,582 - Used Memory: 1520 M - Free Memory: 257 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:54:09,582 - ==================== Down-cast    ====================
2008-01-28 14:54:09,582 - Create file downCast.history.txt
2008-01-28 14:54:09,582 - Create file srcInteractionsUsed.txt
2008-01-28 14:54:14,881 -    > 13743 binary interactions predicted
2008-01-28 14:54:14,882 - 202 binary interactions have not been predicted because they are source interactions
2008-01-28 14:54:14,883 - 0 binary interactions have not been predicted because uniprot id missed
2008-01-28 14:54:14,883 - Used Memory: 1230 M - Free Memory: 547 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:54:14,883 - ==================== Post-process ====================
2008-01-28 14:54:14,883 - Create file InteroPorc.predictedInteractions.mitab
2008-01-28 14:54:14,883 - Write 13743 interactions in the mitab file InteroPorc.predictedInteractions.mitab
2008-01-28 14:54:15,057 - Used Memory: 1114 M - Free Memory: 663 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:54:15,057 - time elapsed: 1.0369166 min
2008-01-28 14:54:15,058 - ======================================================
2008-01-28 14:54:15,058 - 
2008-01-28 14:54:15,058 - Thanks for using the interoPORC tool. All informations are available on http://biodev.extra.cea.fr/interoporc/
2008-01-28 14:54:15,058 -