2008-01-28 14:51:33,765 - Set mitab file: global.mitab
2008-01-28 14:51:33,765 - Set PORC file: porc_gene.dat
2008-01-28 14:51:33,765 - ==================== Pre-process  ====================
2008-01-28 14:51:33,770 - Used Memory: 3 M - Free Memory: 476 M - Total Memory: 479 M - Max Memory: 1777 M
2008-01-28 14:51:37,164 - several Uniprot ac: P50591 and P50591.1
2008-01-28 14:51:37,966 - several Uniprot ac: P31658 and P31658.3
2008-01-28 14:51:37,966 - several Uniprot ac: P31658 and P31658.3
2008-01-28 14:51:38,563 - 478 different taxids in the source interactions (mitab file)
2008-01-28 14:51:38,563 - We use UniprotKB ids for proteins. Only interactions with both Uniprot ids can be used.
2008-01-28 14:51:38,563 - Among them, we only consider physical interactions between 2 different proteins from the same species.
2008-01-28 14:51:38,563 - 185024 source interactions
2008-01-28 14:51:38,563 - 5860 proteins do not have Uniprot id
2008-01-28 14:51:38,563 - 5460 interactions do not have both Uniprot ids
2008-01-28 14:51:38,563 - 1648 interactions are not physical type
2008-01-28 14:51:38,563 - 4481 interactions are self interactions
2008-01-28 14:51:38,563 - 6352 interactions are between 2 different species
2008-01-28 14:51:38,563 -    > 167380 interactions can be used among the 185024 of the mitab file ../../DB/global.mitab
2008-01-28 14:51:38,563 - Compute the mapping from proteomeIds to NCBI taxids from file /opt/appli/interoporc/results/6239/proteome_report.txt
2008-01-28 14:51:38,569 - 666 proteome ids
2008-01-28 14:51:38,569 - 663 taxids
2008-01-28 14:51:38,569 - Parse PORC data (format = one gene by line)...
2008-01-28 14:51:45,097 -    > 215733 clusters are described in the PORC data
2008-01-28 14:51:45,098 - Used Memory: 895 M - Free Memory: 169 M - Total Memory: 1064 M - Max Memory: 1777 M
2008-01-28 14:51:49,066 -    > 1524313 proteins are found in the PORC data
2008-01-28 14:51:49,066 - The predictions will be made for taxid 6239
2008-01-28 14:51:49,066 - Interactions will be predicted for NCBI taxid 6239
2008-01-28 14:51:49,067 - This NCBI taxid corresponds to 9 proteome id in Integr8 data
2008-01-28 14:51:49,067 - Used Memory: 1021 M - Free Memory: 435 M - Total Memory: 1456 M - Max Memory: 1777 M
2008-01-28 14:51:49,067 - Extract interactions with at least one taxid in [6239]
2008-01-28 14:51:55,551 -    > 6466 interactions are present in the source file and will be written in KnownInteractions.mitab file
2008-01-28 14:51:55,551 - Write 6466 interactions in the mitab file KnownInteractions.mitab
2008-01-28 14:51:55,670 - Used Memory: 1166 M - Free Memory: 572 M - Total Memory: 1738 M - Max Memory: 1777 M
2008-01-28 14:51:55,670 - ==================== Up-cast      ====================
2008-01-28 14:51:55,670 - Combine protein-protein interactions and clusters of orthologous proteins.
2008-01-28 14:52:00,275 - several Uniprot ac: P50591 and P50591.1
2008-01-28 14:52:22,109 - 185024 source interactions
2008-01-28 14:52:22,109 - 78864 interactions miss at least one protein in the porcs
2008-01-28 14:52:22,109 - 93693 have been abstracted
2008-01-28 14:52:22,109 -    > 91886 distinct interactions between 2 clusters are constructed
2008-01-28 14:52:22,110 - Used Memory: 1512 M - Free Memory: 265 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:52:22,110 - ==================== Down-cast    ====================
2008-01-28 14:52:22,110 - Create file downCast.history.txt
2008-01-28 14:52:22,110 - Create file srcInteractionsUsed.txt
2008-01-28 14:52:26,882 -    > 10939 binary interactions predicted
2008-01-28 14:52:26,883 - 1061 binary interactions have not been predicted because they are source interactions
2008-01-28 14:52:26,883 - 0 binary interactions have not been predicted because uniprot id missed
2008-01-28 14:52:26,884 - Used Memory: 1208 M - Free Memory: 569 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:52:26,884 - ==================== Post-process ====================
2008-01-28 14:52:26,884 - Create file InteroPorc.predictedInteractions.mitab
2008-01-28 14:52:26,884 - Write 10939 interactions in the mitab file InteroPorc.predictedInteractions.mitab
2008-01-28 14:52:27,009 - Used Memory: 1071 M - Free Memory: 706 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:52:27,010 - time elapsed: 0.88731664 min
2008-01-28 14:52:27,010 - ======================================================
2008-01-28 14:52:27,010 - 
2008-01-28 14:52:27,010 - Thanks for using the interoPORC tool. All informations are available on http://biodev.extra.cea.fr/interoporc/
2008-01-28 14:52:27,010 -