[Obo-svn-commit] SF.net SVN: obo:[3679] phenotype-commons/annotations/Analysis

[<cmu...@us...>]

Revision: 3679
          http://obo.svn.sourceforge.net/obo/?rev=3679&view=rev
Author:   cmungall
Date:     2010-09-23 05:28:08 +0000 (Thu, 23 Sep 2010)

Log Message:
-----------


Modified Paths:
--------------
    phenotype-commons/annotations/Analysis/Makefile
    phenotype-commons/annotations/Analysis/pheno_analysis.pro

Modified: phenotype-commons/annotations/Analysis/Makefile
===================================================================
--- phenotype-commons/annotations/Analysis/Makefile	2010-09-23 05:25:18 UTC (rev 3678)
+++ phenotype-commons/annotations/Analysis/Makefile	2010-09-23 05:28:08 UTC (rev 3679)
@@ -96,7 +96,7 @@
 
 # todo: change to use background population of genes
 mgi_genotype_vs_omim_conjIC.tbl:
-	blip-findall -debug sim -r upheno -r omim -r mgi_genotype_gene -debug index -i pheno_analysis.pro -table_pred simmatrix:attribute_pair_pval_hyper/7 -i mgi_gene_vs_omim.tbl -goal "save_ic('gene_ic.pro'),index_attribute_subsumer('attsub.pro')" -multifile user:g2p/2 -i mgi_genotype_phenotype_2uph_f.tbl -i omim_phenotype_2uph_f.tbl genotype_disorder_conjIC/4 -label > $@.tmp && mv $@.tmp $@
+	blip-findall -r upheno -r omim -r mgi_genotype_gene -debug index -i pheno_analysis.pro -table_pred simmatrix:attribute_pair_pval_hyper/7 -i mgi_gene_vs_omim.tbl -goal "save_ic('gene_ic.pro'),index_attribute_subsumer('attsub.pro')" -multifile user:g2p/2 -i mgi_genotype_phenotype_2uph_f.tbl -i omim_phenotype_2uph_f.tbl genotype_disorder_conjIC/6 -label > $@.tmp && mv $@.tmp $@
 #	blip-findall -r upheno -r omim -r mgi_genotype_gene -debug index -i pheno_analysis.pro -i phenotype_correlation.tbl -i mgi_gene_vs_omim.tbl -goal "generate_term_indexes(A,B,g2p(A,B)),index_attribute_subsumer('attsub.pro')" -multifile user:g2p/2 -i mgi_genotype_phenotype_2uph_f.tbl -i omim_phenotype_2uph_f.tbl foo_genotype_disorder_icsum/4 -label > $@.tmp && mv $@.tmp $@
 .PRECIOUS: mgi_genotype_vs_omim_conjIC.tbl
 

Modified: phenotype-commons/annotations/Analysis/pheno_analysis.pro
===================================================================
--- phenotype-commons/annotations/Analysis/pheno_analysis.pro	2010-09-23 05:25:18 UTC (rev 3678)
+++ phenotype-commons/annotations/Analysis/pheno_analysis.pro	2010-09-23 05:28:08 UTC (rev 3679)
@@ -100,9 +100,9 @@
         pick_genotype_gene(F1,F2),
         feature_pair_nr_ICatt_pairs(F1,F2,ICSum,Atts).
 
-genotype_disorder_conjIC(F1,F2,ICSum,Atts) :-
+genotype_disorder_conjIC(F1,F2,N1,N2,ICSum,Atts) :-
         pick_genotype_gene(F1,F2),
-        feature_pair_nr_independent_atts(F1,F2,ICSum,Atts).
+        feature_pair_nr_independent_atts_independent(F1,F2,N1,N2,ICSum,Atts).
 
 genotype_disorder_similarity(F1,F2,CI,CU,SimJ,SimJ_of_F1,SimJ_of_F2,MaxSimJ,SimJ2,MaxIC,AL) :-
         pick_genotype_gene(F1,F2),


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