2008-01-28 14:55:11,974 - Set mitab file: global.mitab
2008-01-28 14:55:11,975 - Set PORC file: porc_gene.dat
2008-01-28 14:55:11,975 - ==================== Pre-process  ====================
2008-01-28 14:55:11,979 - Used Memory: 3 M - Free Memory: 476 M - Total Memory: 479 M - Max Memory: 1777 M
2008-01-28 14:55:15,396 - several Uniprot ac: P50591 and P50591.1
2008-01-28 14:55:16,207 - several Uniprot ac: P31658 and P31658.3
2008-01-28 14:55:16,208 - several Uniprot ac: P31658 and P31658.3
2008-01-28 14:55:16,810 - 478 different taxids in the source interactions (mitab file)
2008-01-28 14:55:16,810 - We use UniprotKB ids for proteins. Only interactions with both Uniprot ids can be used.
2008-01-28 14:55:16,810 - Among them, we only consider physical interactions between 2 different proteins from the same species.
2008-01-28 14:55:16,810 - 185024 source interactions
2008-01-28 14:55:16,810 - 5860 proteins do not have Uniprot id
2008-01-28 14:55:16,810 - 5460 interactions do not have both Uniprot ids
2008-01-28 14:55:16,810 - 1648 interactions are not physical type
2008-01-28 14:55:16,810 - 4481 interactions are self interactions
2008-01-28 14:55:16,810 - 6352 interactions are between 2 different species
2008-01-28 14:55:16,810 -    > 167380 interactions can be used among the 185024 of the mitab file ../../DB/global.mitab
2008-01-28 14:55:16,811 - Compute the mapping from proteomeIds to NCBI taxids from file /opt/appli/interoporc/results/9606/proteome_report.txt
2008-01-28 14:55:16,816 - 666 proteome ids
2008-01-28 14:55:16,816 - 663 taxids
2008-01-28 14:55:16,817 - Parse PORC data (format = one gene by line)...
2008-01-28 14:55:23,410 -    > 215733 clusters are described in the PORC data
2008-01-28 14:55:23,410 - Used Memory: 895 M - Free Memory: 169 M - Total Memory: 1064 M - Max Memory: 1777 M
2008-01-28 14:55:27,413 -    > 1524313 proteins are found in the PORC data
2008-01-28 14:55:27,413 - The predictions will be made for taxid 9606
2008-01-28 14:55:27,413 - Interactions will be predicted for NCBI taxid 9606
2008-01-28 14:55:27,413 - This NCBI taxid corresponds to 25 proteome id in Integr8 data
2008-01-28 14:55:27,413 - Used Memory: 1041 M - Free Memory: 416 M - Total Memory: 1457 M - Max Memory: 1777 M
2008-01-28 14:55:27,413 - Extract interactions with at least one taxid in [9606]
2008-01-28 14:55:34,297 -    > 32341 interactions are present in the source file and will be written in KnownInteractions.mitab file
2008-01-28 14:55:34,297 - Write 32341 interactions in the mitab file KnownInteractions.mitab
2008-01-28 14:55:34,861 - Used Memory: 1171 M - Free Memory: 606 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:55:34,861 - ==================== Up-cast      ====================
2008-01-28 14:55:34,861 - Combine protein-protein interactions and clusters of orthologous proteins.
2008-01-28 14:55:43,020 - several Uniprot ac: P50591 and P50591.1
2008-01-28 14:56:09,403 - 185024 source interactions
2008-01-28 14:56:09,403 - 78864 interactions miss at least one protein in the porcs
2008-01-28 14:56:09,403 - 93693 have been abstracted
2008-01-28 14:56:09,404 -    > 91886 distinct interactions between 2 clusters are constructed
2008-01-28 14:56:09,404 - Used Memory: 1480 M - Free Memory: 297 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:56:09,404 - ==================== Down-cast    ====================
2008-01-28 14:56:09,404 - Create file downCast.history.txt
2008-01-28 14:56:09,404 - Create file srcInteractionsUsed.txt
2008-01-28 14:56:14,447 -    > 17273 binary interactions predicted
2008-01-28 14:56:14,448 - 16838 binary interactions have not been predicted because they are source interactions
2008-01-28 14:56:14,448 - 0 binary interactions have not been predicted because uniprot id missed
2008-01-28 14:56:14,448 - Used Memory: 1079 M - Free Memory: 698 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:56:14,448 - ==================== Post-process ====================
2008-01-28 14:56:14,448 - Create file InteroPorc.predictedInteractions.mitab
2008-01-28 14:56:14,448 - Write 17273 interactions in the mitab file InteroPorc.predictedInteractions.mitab
2008-01-28 14:56:14,583 - Used Memory: 1196 M - Free Memory: 581 M - Total Memory: 1777 M - Max Memory: 1777 M
2008-01-28 14:56:14,583 - time elapsed: 1.0434 min
2008-01-28 14:56:14,583 - ======================================================
2008-01-28 14:56:14,583 - 
2008-01-28 14:56:14,583 - Thanks for using the interoPORC tool. All informations are available on http://biodev.extra.cea.fr/interoporc/
2008-01-28 14:56:14,583 -