2008-01-28 14:52:27,273 - Set mitab file: global.mitab
2008-01-28 14:52:27,273 - Set PORC file: porc_gene.dat
2008-01-28 14:52:27,273 - ==================== Pre-process  ====================
2008-01-28 14:52:27,278 - Used Memory: 3 M - Free Memory: 476 M - Total Memory: 479 M - Max Memory: 1777 M
2008-01-28 14:52:30,688 - several Uniprot ac: P50591 and P50591.1
2008-01-28 14:52:31,497 - several Uniprot ac: P31658 and P31658.3
2008-01-28 14:52:31,497 - several Uniprot ac: P31658 and P31658.3
2008-01-28 14:52:32,096 - 478 different taxids in the source interactions (mitab file)
2008-01-28 14:52:32,096 - We use UniprotKB ids for proteins. Only interactions with both Uniprot ids can be used.
2008-01-28 14:52:32,096 - Among them, we only consider physical interactions between 2 different proteins from the same species.
2008-01-28 14:52:32,096 - 185024 source interactions
2008-01-28 14:52:32,096 - 5860 proteins do not have Uniprot id
2008-01-28 14:52:32,096 - 5460 interactions do not have both Uniprot ids
2008-01-28 14:52:32,096 - 1648 interactions are not physical type
2008-01-28 14:52:32,096 - 4481 interactions are self interactions
2008-01-28 14:52:32,096 - 6352 interactions are between 2 different species
2008-01-28 14:52:32,097 -    > 167380 interactions can be used among the 185024 of the mitab file ../../DB/global.mitab
2008-01-28 14:52:32,097 - Compute the mapping from proteomeIds to NCBI taxids from file /opt/appli/interoporc/results/7227/proteome_report.txt
2008-01-28 14:52:32,102 - 666 proteome ids
2008-01-28 14:52:32,102 - 663 taxids
2008-01-28 14:52:32,103 - Parse PORC data (format = one gene by line)...
2008-01-28 14:52:38,648 -    > 215733 clusters are described in the PORC data
2008-01-28 14:52:38,648 - Used Memory: 894 M - Free Memory: 170 M - Total Memory: 1064 M - Max Memory: 1777 M
2008-01-28 14:52:42,661 -    > 1524313 proteins are found in the PORC data
2008-01-28 14:52:42,662 - The predictions will be made for taxid 7227
2008-01-28 14:52:42,662 - Interactions will be predicted for NCBI taxid 7227
2008-01-28 14:52:42,662 - This NCBI taxid corresponds to 17 proteome id in Integr8 data
2008-01-28 14:52:42,662 - Used Memory: 1041 M - Free Memory: 416 M - Total Memory: 1457 M - Max Memory: 1777 M
2008-01-28 14:52:42,662 - Extract interactions with at least one taxid in [7227]
2008-01-28 14:52:50,630 -    > 50816 interactions are present in the source file and will be written in KnownInteractions.mitab file
2008-01-28 14:52:50,630 - Write 50816 interactions in the mitab file KnownInteractions.mitab
2008-01-28 14:52:51,175 - Used Memory: 1371 M - Free Memory: 406 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:52:51,176 - ==================== Up-cast      ====================
2008-01-28 14:52:51,176 - Combine protein-protein interactions and clusters of orthologous proteins.
2008-01-28 14:52:58,321 - several Uniprot ac: P50591 and P50591.1
2008-01-28 14:53:07,522 - 185024 source interactions
2008-01-28 14:53:07,523 - 78864 interactions miss at least one protein in the porcs
2008-01-28 14:53:07,523 - 93693 have been abstracted
2008-01-28 14:53:07,523 -    > 91886 distinct interactions between 2 clusters are constructed
2008-01-28 14:53:07,523 - Used Memory: 1551 M - Free Memory: 226 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:53:07,523 - ==================== Down-cast    ====================
2008-01-28 14:53:07,523 - Create file downCast.history.txt
2008-01-28 14:53:07,523 - Create file srcInteractionsUsed.txt
2008-01-28 14:53:12,442 -    > 13447 binary interactions predicted
2008-01-28 14:53:12,442 - 9740 binary interactions have not been predicted because they are source interactions
2008-01-28 14:53:12,442 - 0 binary interactions have not been predicted because uniprot id missed
2008-01-28 14:53:12,442 - Used Memory: 1089 M - Free Memory: 688 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:53:12,442 - ==================== Post-process ====================
2008-01-28 14:53:12,442 - Create file InteroPorc.predictedInteractions.mitab
2008-01-28 14:53:12,442 - Write 13447 interactions in the mitab file InteroPorc.predictedInteractions.mitab
2008-01-28 14:53:12,556 - Used Memory: 1178 M - Free Memory: 599 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:53:12,556 - time elapsed: 0.7546333 min
2008-01-28 14:53:12,556 - ======================================================
2008-01-28 14:53:12,556 - 
2008-01-28 14:53:12,556 - Thanks for using the interoPORC tool. All informations are available on http://biodev.extra.cea.fr/interoporc/
2008-01-28 14:53:12,556 -