>creating p-loci data structure...done -> selfscore (ENSP00000226440) successfully validated... WARNING: Best-reference-hit is not on the same chromosome/contig as the reference! -> the selfscore for query protein "ENSP00000355331" is NOT valid! -> selfscore (ENSP00000370824) successfully validated... -> selfscore (ENSP00000373593) successfully validated... -> selfscore (ENSP00000336752) successfully validated... -> selfscore (ENSP00000370784) successfully validated... -> selfscore (ENSP00000370782) successfully validated... -> selfscore (ENSP00000353928) successfully validated... -> selfscore (ENSP00000370773) successfully validated... -> selfscore (ENSP00000370771) successfully validated... -> selfscore (ENSP00000257290) successfully validated... -> selfscore (ENSP00000370749) successfully validated... -> selfscore (ENSP00000370742) successfully validated... -> selfscore (ENSP00000318188) successfully validated... -> selfscore (ENSP00000370736) successfully validated... -> selfscore (ENSP00000370726) successfully validated... -> selfscore (ENSP00000295645) successfully validated... -> selfscore (ENSP00000370717) successfully validated... -> selfscore (ENSP00000370715) successfully validated... -> selfscore (ENSP00000370695) successfully validated... -> selfscore (ENSP00000257287) successfully validated... >fetching global-besthit data for all queries against Danio_rerio...>warning: tblastn/allParahox.Danio_rerio.blastresult contains no data (at least for query "ENSP00000370717"! (getBestBlastHit) done >fetching EnsemblCompara-homologs for (GeneID=ENSG00000109189, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000163074, targetOrg=Danio_rerio)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000128045, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000184178, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000145216, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000072201, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000173966, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000186244, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000109220, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000180613, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000134853, targetOrg=Danio_rerio)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000157404, targetOrg=Danio_rerio)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000128052, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000128039, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000134851, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000134852, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000163440, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000109255, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000205700, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000090989, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000174799, targetOrg=Danio_rerio)...ok >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together... >recalculated the boundaries for current block, as changed done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...Argument "Zv7_NA3207" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "Zv7_NA3207" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...Argument "Zv7_NA3308" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "Zv7_NA3308" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...Argument "Zv7_scaffold2547" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "Zv7_scaffold2547" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...Argument "Zv7_NA1887" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "Zv7_NA1887" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. >chaining blast-hits together...done >calculating gene order alignments...Argument "Zv7_NA1361" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "Zv7_NA1361" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. >chaining blast-hits together...done >calculating gene order alignments...Argument "Zv7_NA1005" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "Zv7_NA1005" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...Argument "Zv7_NA3755" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "Zv7_NA3755" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150.