>creating p-loci data structure...done -> selfscore (ENSP00000355140) successfully validated... -> selfscore (ENSP00000331741) successfully validated... -> selfscore (ENSP00000308252) successfully validated... -> selfscore (ENSP00000328928) successfully validated... -> selfscore (ENSP00000239151) successfully validated... -> selfscore (ENSP00000225648) successfully validated... -> selfscore (ENSP00000365889) successfully validated... -> selfscore (ENSP00000239165) successfully validated... -> selfscore (ENSP00000239144) successfully validated... -> selfscore (ENSP00000309439) successfully validated... -> selfscore (ENSP00000290294) successfully validated... -> selfscore (ENSP00000290295) successfully validated... -> selfscore (ENSP00000302547) successfully validated... -> selfscore (ENSP00000365871) successfully validated... >fetching global-besthit data for all queries against Gallus_gallus...>warning: tblastn/HOX.Gallus_gallus.blastresult contains no data (at least for query "ENSP00000365889"! (getBestBlastHit) >warning: tblastn/HOX.Gallus_gallus.blastresult contains no data (at least for query "ENSP00000290294"! (getBestBlastHit) >warning: tblastn/HOX.Gallus_gallus.blastresult contains no data (at least for query "ENSP00000365871"! (getBestBlastHit) done >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120094, targetOrg=Gallus_gallus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000173917, targetOrg=Gallus_gallus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120093, targetOrg=Gallus_gallus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000182742, targetOrg=Gallus_gallus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120075, targetOrg=Gallus_gallus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000108511, targetOrg=Gallus_gallus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204609, targetOrg=Gallus_gallus)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120087, targetOrg=Gallus_gallus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120068, targetOrg=Gallus_gallus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170689, targetOrg=Gallus_gallus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159182, targetOrg=Gallus_gallus)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159184, targetOrg=Gallus_gallus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170703, targetOrg=Gallus_gallus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204606, targetOrg=Gallus_gallus)...none >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 "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "Un_random" 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 "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "Un_random" 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...Argument "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "Un_random" 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 "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "Un_random" 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...Argument "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "Un_random" 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 >fetching global-besthit data for all queries against Macaca_mulatta...done >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120094, targetOrg=Macaca_mulatta)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000173917, targetOrg=Macaca_mulatta)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120093, targetOrg=Macaca_mulatta)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000182742, targetOrg=Macaca_mulatta)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120075, targetOrg=Macaca_mulatta)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000108511, targetOrg=Macaca_mulatta)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204609, targetOrg=Macaca_mulatta)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120087, targetOrg=Macaca_mulatta)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120068, targetOrg=Macaca_mulatta)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170689, targetOrg=Macaca_mulatta)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159182, targetOrg=Macaca_mulatta)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159184, targetOrg=Macaca_mulatta)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170703, targetOrg=Macaca_mulatta)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204606, targetOrg=Macaca_mulatta)...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 >Could not get slice! >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...done >calculating gene order alignments...done >fetching global-besthit data for all queries against Bos_taurus...>warning: tblastn/HOX.Bos_taurus.blastresult contains no data (at least for query "ENSP00000290294"! (getBestBlastHit) done >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120094, targetOrg=Bos_taurus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000173917, targetOrg=Bos_taurus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120093, targetOrg=Bos_taurus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000182742, targetOrg=Bos_taurus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120075, targetOrg=Bos_taurus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000108511, targetOrg=Bos_taurus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204609, targetOrg=Bos_taurus)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120087, targetOrg=Bos_taurus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120068, targetOrg=Bos_taurus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170689, targetOrg=Bos_taurus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159182, targetOrg=Bos_taurus)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159184, targetOrg=Bos_taurus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170703, targetOrg=Bos_taurus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204606, targetOrg=Bos_taurus)...none >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 "ChrUn.82333" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. 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 >fetching global-besthit data for all queries against Danio_rerio...>warning: tblastn/HOX.Danio_rerio.blastresult contains no data (at least for query "ENSP00000365889"! (getBestBlastHit) >warning: tblastn/HOX.Danio_rerio.blastresult contains no data (at least for query "ENSP00000290294"! (getBestBlastHit) >warning: tblastn/HOX.Danio_rerio.blastresult contains no data (at least for query "ENSP00000365871"! (getBestBlastHit) done >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120094, targetOrg=Danio_rerio)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000173917, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120093, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000182742, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120075, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000108511, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204609, targetOrg=Danio_rerio)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120087, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120068, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170689, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159182, targetOrg=Danio_rerio)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159184, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170703, targetOrg=Danio_rerio)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204606, targetOrg=Danio_rerio)...none >chaining blast-hits together...done >calculating gene order alignments...done Note: comparaResult did not give exactly one result type! >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...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 >fetching global-besthit data for all queries against Homo_sapiens...done >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120094, targetOrg=Homo_sapiens)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000173917, targetOrg=Homo_sapiens)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120093, targetOrg=Homo_sapiens)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000182742, targetOrg=Homo_sapiens)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120075, targetOrg=Homo_sapiens)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000108511, targetOrg=Homo_sapiens)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204609, targetOrg=Homo_sapiens)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120087, targetOrg=Homo_sapiens)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120068, targetOrg=Homo_sapiens)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170689, targetOrg=Homo_sapiens)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159182, targetOrg=Homo_sapiens)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159184, targetOrg=Homo_sapiens)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170703, targetOrg=Homo_sapiens)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204606, targetOrg=Homo_sapiens)...none >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 "NT_113886" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. 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 >fetching global-besthit data for all queries against Takifugu_rubripes...>warning: tblastn/HOX.Takifugu_rubripes.blastresult contains no data (at least for query "ENSP00000365889"! (getBestBlastHit) >warning: tblastn/HOX.Takifugu_rubripes.blastresult contains no data (at least for query "ENSP00000290294"! (getBestBlastHit) >warning: tblastn/HOX.Takifugu_rubripes.blastresult contains no data (at least for query "ENSP00000365871"! (getBestBlastHit) done >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120094, targetOrg=Takifugu_rubripes)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000173917, targetOrg=Takifugu_rubripes)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120093, targetOrg=Takifugu_rubripes)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000182742, targetOrg=Takifugu_rubripes)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120075, targetOrg=Takifugu_rubripes)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000108511, targetOrg=Takifugu_rubripes)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204609, targetOrg=Takifugu_rubripes)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120087, targetOrg=Takifugu_rubripes)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120068, targetOrg=Takifugu_rubripes)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170689, targetOrg=Takifugu_rubripes)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159182, targetOrg=Takifugu_rubripes)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159184, targetOrg=Takifugu_rubripes)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170703, targetOrg=Takifugu_rubripes)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204606, targetOrg=Takifugu_rubripes)...none >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_41" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "scaffold_41" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_41" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_41" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_41" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_41" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_41" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_41" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_41" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_41" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_41" 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 "scaffold_12" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "scaffold_12" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_12" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_12" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_12" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_12" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_12" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_12" 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 "scaffold_130" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "scaffold_130" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_130" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_130" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_130" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_130" 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 "scaffold_100" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "scaffold_100" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_100" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_100" 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 "scaffold_66" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "scaffold_66" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_66" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_66" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_66" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_66" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_66" 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 "scaffold_48" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "scaffold_48" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_48" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_48" 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 "scaffold_346" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "scaffold_346" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_346" 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 "scaffold_3809" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "scaffold_3809" 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 "scaffold_39" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "scaffold_39" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_39" 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 "scaffold_4108" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "scaffold_4108" 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 "scaffold_95" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_6" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_13" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_107" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_3110" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "scaffold_3110" 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 "scaffold_57" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_142" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_154" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_659" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_207" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >fetching global-besthit data for all queries against Oryzias_latipes...>warning: tblastn/HOX.Oryzias_latipes.blastresult contains no data (at least for query "ENSP00000365889"! (getBestBlastHit) >warning: tblastn/HOX.Oryzias_latipes.blastresult contains no data (at least for query "ENSP00000290294"! (getBestBlastHit) >warning: tblastn/HOX.Oryzias_latipes.blastresult contains no data (at least for query "ENSP00000365871"! (getBestBlastHit) done >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120094, targetOrg=Oryzias_latipes)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000173917, targetOrg=Oryzias_latipes)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120093, targetOrg=Oryzias_latipes)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000182742, targetOrg=Oryzias_latipes)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120075, targetOrg=Oryzias_latipes)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000108511, targetOrg=Oryzias_latipes)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204609, targetOrg=Oryzias_latipes)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120087, targetOrg=Oryzias_latipes)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120068, targetOrg=Oryzias_latipes)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170689, targetOrg=Oryzias_latipes)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159182, targetOrg=Oryzias_latipes)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159184, targetOrg=Oryzias_latipes)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170703, targetOrg=Oryzias_latipes)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204606, targetOrg=Oryzias_latipes)...none >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 "scaffold1004" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. 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 "ultracontig256" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. 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 >fetching global-besthit data for all queries against Canis_familiaris...>warning: tblastn/HOX.Canis_familiaris.blastresult contains no data (at least for query "ENSP00000365889"! (getBestBlastHit) >warning: tblastn/HOX.Canis_familiaris.blastresult contains no data (at least for query "ENSP00000290294"! (getBestBlastHit) done >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120094, targetOrg=Canis_familiaris)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000173917, targetOrg=Canis_familiaris)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120093, targetOrg=Canis_familiaris)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000182742, targetOrg=Canis_familiaris)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120075, targetOrg=Canis_familiaris)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000108511, targetOrg=Canis_familiaris)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204609, targetOrg=Canis_familiaris)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120087, targetOrg=Canis_familiaris)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120068, targetOrg=Canis_familiaris)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170689, targetOrg=Canis_familiaris)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159182, targetOrg=Canis_familiaris)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159184, targetOrg=Canis_familiaris)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170703, targetOrg=Canis_familiaris)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204606, targetOrg=Canis_familiaris)...none >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...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 >fetching global-besthit data for all queries against Gasterosteus_aculeatus...>warning: tblastn/HOX.Gasterosteus_aculeatus.blastresult contains no data (at least for query "ENSP00000365889"! (getBestBlastHit) >warning: tblastn/HOX.Gasterosteus_aculeatus.blastresult contains no data (at least for query "ENSP00000290294"! (getBestBlastHit) >warning: tblastn/HOX.Gasterosteus_aculeatus.blastresult contains no data (at least for query "ENSP00000365871"! (getBestBlastHit) done >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120094, targetOrg=Gasterosteus_aculeatus)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000173917, targetOrg=Gasterosteus_aculeatus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120093, targetOrg=Gasterosteus_aculeatus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000182742, targetOrg=Gasterosteus_aculeatus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120075, targetOrg=Gasterosteus_aculeatus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000108511, targetOrg=Gasterosteus_aculeatus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204609, targetOrg=Gasterosteus_aculeatus)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120087, targetOrg=Gasterosteus_aculeatus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120068, targetOrg=Gasterosteus_aculeatus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170689, targetOrg=Gasterosteus_aculeatus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159182, targetOrg=Gasterosteus_aculeatus)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159184, targetOrg=Gasterosteus_aculeatus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170703, targetOrg=Gasterosteus_aculeatus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204606, targetOrg=Gasterosteus_aculeatus)...none >chaining blast-hits together...done >calculating gene order alignments...Argument "groupXI" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "groupXI" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXI" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXI" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXI" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXI" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXI" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXI" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXI" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXI" 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 "groupX" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "groupX" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupX" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupX" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupX" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupX" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupX" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupX" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupX" 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 "contig_2344" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "contig_2344" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_2344" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_2344" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_2344" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_2344" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_2344" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_2344" 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 "contig_5303" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "contig_5303" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_5303" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_5303" 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 "groupXVI" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "groupXVI" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXVI" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXVI" 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 "contig_9872" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "contig_9872" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_9872" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_9872" 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 "groupXII" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "groupXII" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXII" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXII" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXII" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXII" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXII" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXII" 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 "groupV" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "groupV" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupV" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupV" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupV" 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 "contig_2643" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "contig_2643" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_2643" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_2643" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_2643" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_2643" 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 "contig_6417" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "contig_6417" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_6417" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_6417" 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 "contig_9874" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "contig_9874" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_9874" 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 "contig_1095" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "contig_1095" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_1095" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_1095" 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 "groupXX" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "groupXX" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXX" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupXX" 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 "contig_9877" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "contig_9877" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_9877" 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 "groupVI" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "groupVI" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "groupVI" 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 "contig_9873" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "contig_9873" 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 "contig_4903" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "contig_4903" 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 "contig_2345" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "contig_2345" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "contig_2345" 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 "contig_5780" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "groupXXI" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >fetching global-besthit data for all queries against Monodelphis_domestica...>warning: tblastn/HOX.Monodelphis_domestica.blastresult contains no data (at least for query "ENSP00000365889"! (getBestBlastHit) >warning: tblastn/HOX.Monodelphis_domestica.blastresult contains no data (at least for query "ENSP00000290294"! (getBestBlastHit) >warning: tblastn/HOX.Monodelphis_domestica.blastresult contains no data (at least for query "ENSP00000365871"! (getBestBlastHit) done >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120094, targetOrg=Monodelphis_domestica)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000173917, targetOrg=Monodelphis_domestica)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120093, targetOrg=Monodelphis_domestica)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000182742, targetOrg=Monodelphis_domestica)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120075, targetOrg=Monodelphis_domestica)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000108511, targetOrg=Monodelphis_domestica)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204609, targetOrg=Monodelphis_domestica)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120087, targetOrg=Monodelphis_domestica)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120068, targetOrg=Monodelphis_domestica)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170689, targetOrg=Monodelphis_domestica)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159182, targetOrg=Monodelphis_domestica)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159184, targetOrg=Monodelphis_domestica)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170703, targetOrg=Monodelphis_domestica)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204606, targetOrg=Monodelphis_domestica)...none >chaining blast-hits together...done >calculating gene order alignments...done -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- >chaining blast-hits together...done >calculating gene order alignments...done -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- >chaining blast-hits together...done >calculating gene order alignments...done -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- >chaining blast-hits together...done >calculating gene order alignments...Argument "Un" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "Un" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- >chaining blast-hits together...done >calculating gene order alignments...done -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- >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...done >calculating gene order alignments...done >fetching global-besthit data for all queries against Tetraodon_nigroviridis...>warning: tblastn/HOX.Tetraodon_nigroviridis.blastresult contains no data (at least for query "ENSP00000365889"! (getBestBlastHit) >warning: tblastn/HOX.Tetraodon_nigroviridis.blastresult contains no data (at least for query "ENSP00000290294"! (getBestBlastHit) >warning: tblastn/HOX.Tetraodon_nigroviridis.blastresult contains no data (at least for query "ENSP00000365871"! (getBestBlastHit) done >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120094, targetOrg=Tetraodon_nigroviridis)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000173917, targetOrg=Tetraodon_nigroviridis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120093, targetOrg=Tetraodon_nigroviridis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000182742, targetOrg=Tetraodon_nigroviridis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120075, targetOrg=Tetraodon_nigroviridis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000108511, targetOrg=Tetraodon_nigroviridis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204609, targetOrg=Tetraodon_nigroviridis)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120087, targetOrg=Tetraodon_nigroviridis)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120068, targetOrg=Tetraodon_nigroviridis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170689, targetOrg=Tetraodon_nigroviridis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159182, targetOrg=Tetraodon_nigroviridis)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159184, targetOrg=Tetraodon_nigroviridis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170703, targetOrg=Tetraodon_nigroviridis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204606, targetOrg=Tetraodon_nigroviridis)...none >chaining blast-hits together...done >calculating gene order alignments...Argument "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Note: comparaResult did not give exactly one result type! Argument "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "Un_random" 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...Argument "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "Un_random" 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 "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "Un_random" 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...Argument "15_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "1_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. 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 "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...done >chaining blast-hits together...done >calculating gene order alignments...done >fetching global-besthit data for all queries against Xenopus_tropicalis...>warning: tblastn/HOX.Xenopus_tropicalis.blastresult contains no data (at least for query "ENSP00000365889"! (getBestBlastHit) >warning: tblastn/HOX.Xenopus_tropicalis.blastresult contains no data (at least for query "ENSP00000290294"! (getBestBlastHit) >warning: tblastn/HOX.Xenopus_tropicalis.blastresult contains no data (at least for query "ENSP00000365871"! (getBestBlastHit) done >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120094, targetOrg=Xenopus_tropicalis)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000173917, targetOrg=Xenopus_tropicalis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120093, targetOrg=Xenopus_tropicalis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000182742, targetOrg=Xenopus_tropicalis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120075, targetOrg=Xenopus_tropicalis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000108511, targetOrg=Xenopus_tropicalis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204609, targetOrg=Xenopus_tropicalis)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120087, targetOrg=Xenopus_tropicalis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120068, targetOrg=Xenopus_tropicalis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170689, targetOrg=Xenopus_tropicalis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159182, targetOrg=Xenopus_tropicalis)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159184, targetOrg=Xenopus_tropicalis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170703, targetOrg=Xenopus_tropicalis)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204606, targetOrg=Xenopus_tropicalis)...none >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_334" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "scaffold_334" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_334" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_334" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_334" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_334" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_334" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_334" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_334" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_334" 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 "scaffold_56" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "scaffold_56" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_56" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_56" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_56" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_56" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_56" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_56" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_56" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_56" 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 "scaffold_163" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "scaffold_163" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_163" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_163" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_163" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_163" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_163" 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 "scaffold_226" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done Argument "scaffold_226" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_226" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_226" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_226" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_226" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_226" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 1150. Argument "scaffold_226" 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 "scaffold_80" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_107" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_15" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_2875" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_237" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_441" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_230" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_486" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_316" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_668" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_271" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_30" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_28" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_583" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_145" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >chaining blast-hits together...done >calculating gene order alignments...Argument "scaffold_364" isn't numeric in int at /scr/mojito/joe/src/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465. done >fetching global-besthit data for all queries against Mus_musculus...>warning: tblastn/HOX.Mus_musculus.blastresult contains no data (at least for query "ENSP00000365889"! (getBestBlastHit) >warning: tblastn/HOX.Mus_musculus.blastresult contains no data (at least for query "ENSP00000290294"! (getBestBlastHit) done >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120094, targetOrg=Mus_musculus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000173917, targetOrg=Mus_musculus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120093, targetOrg=Mus_musculus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000182742, targetOrg=Mus_musculus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120075, targetOrg=Mus_musculus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000108511, targetOrg=Mus_musculus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204609, targetOrg=Mus_musculus)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120087, targetOrg=Mus_musculus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000120068, targetOrg=Mus_musculus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170689, targetOrg=Mus_musculus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159182, targetOrg=Mus_musculus)...none >fetching EnsemblCompara-homologs for (GeneID=ENSG00000159184, targetOrg=Mus_musculus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000170703, targetOrg=Mus_musculus)...ok >fetching EnsemblCompara-homologs for (GeneID=ENSG00000204606, targetOrg=Mus_musculus)...none >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...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 Argument "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. >Could not get slice! >"ENSG00000170689-homologs/comparaHits/Homo_sapiens.ENSP00000309439.fa" did already exist, skip downloading... >"ENSG00000170689-homologs/comparaHits/Homo_sapiens.ENSP00000309439.fa" did already exist, skip downloading... Argument "scaffold_4108" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "scaffold_100" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "scaffold_48" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "scaffold_12" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "scaffold_39" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "scaffold_41" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "scaffold_66" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "contig_2345" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "contig_5303" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "groupXVI" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "contig_1095" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "groupXX" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "contig_9877" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "groupVI" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "groupX" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "contig_2643" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "groupXI" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "contig_2344" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "groupXII" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- -------------------- WARNING --------------------- MSG: Got a sequence with no letters in it cannot guess alphabet [] --------------------------------------------------- Argument "Un_random" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "scaffold_334" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "scaffold_56" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "scaffold_163" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999. Argument "scaffold_226" isn't numeric in int at /scr/mojito/joe/src/perl/bin/doSyntenyAlignment.pl line 999.