>creating p-loci data structure...done
 -> selfscore (ENSP00000314501) successfully validated...
 -> selfscore (ENSP00000264867) successfully validated...
 -> selfscore (ENSP00000336741) successfully validated...
 -> selfscore (ENSP00000371554) successfully validated...
 -> selfscore (ENSP00000374260) successfully validated...
 -> selfscore (ENSP00000371548) successfully validated...
 -> selfscore (ENSP00000351857) successfully validated...
 -> selfscore (ENSP00000264864) successfully validated...
 -> selfscore (ENSP00000303468) successfully validated...
 -> selfscore (ENSP00000318775) successfully validated...
 -> selfscore (ENSP00000371483) successfully validated...
 -> selfscore (ENSP00000264868) successfully validated...
 -> selfscore (ENSP00000317556) successfully validated...
 -> selfscore (ENSP00000345206) successfully validated...
 -> selfscore (ENSP00000295589) successfully validated...
>fetching global-besthit data for all queries against Monodelphis_domestica...done
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000176201, targetOrg=Monodelphis_domestica)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000109819, targetOrg=Monodelphis_domestica)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000109606, targetOrg=Monodelphis_domestica)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000109610, targetOrg=Monodelphis_domestica)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000181982, targetOrg=Monodelphis_domestica)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000153012, targetOrg=Monodelphis_domestica)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000109618, targetOrg=Monodelphis_domestica)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000038210, targetOrg=Monodelphis_domestica)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000168228, targetOrg=Monodelphis_domestica)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000053900, targetOrg=Monodelphis_domestica)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000157765, targetOrg=Monodelphis_domestica)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000091490, targetOrg=Monodelphis_domestica)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000180408, targetOrg=Monodelphis_domestica)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000168214, targetOrg=Monodelphis_domestica)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000163394, targetOrg=Monodelphis_domestica)...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
>fetching global-besthit data for all queries against Ornithorhynchus_anatinus...>warning: tblastn/DHX15_ENSG00000109606_2e6.protein.info.Ornithorhynchus_anatinus.blastresult contains no data (at least for query "ENSP00000317556"! (getBestBlastHit)
done
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000176201, targetOrg=Ornithorhynchus_anatinus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000109819, targetOrg=Ornithorhynchus_anatinus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000109606, targetOrg=Ornithorhynchus_anatinus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000109610, targetOrg=Ornithorhynchus_anatinus)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000181982, targetOrg=Ornithorhynchus_anatinus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000153012, targetOrg=Ornithorhynchus_anatinus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000109618, targetOrg=Ornithorhynchus_anatinus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000038210, targetOrg=Ornithorhynchus_anatinus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000168228, targetOrg=Ornithorhynchus_anatinus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000053900, targetOrg=Ornithorhynchus_anatinus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000157765, targetOrg=Ornithorhynchus_anatinus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000091490, targetOrg=Ornithorhynchus_anatinus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000180408, targetOrg=Ornithorhynchus_anatinus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000168214, targetOrg=Ornithorhynchus_anatinus)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000163394, targetOrg=Ornithorhynchus_anatinus)...none
>chaining blast-hits together...done
>calculating gene order alignments...done
Note: comparaResult did not give exactly one result type (between_species_paralog and ortholog_one2one for target Ornithorhynchus_anatinus)!
>chaining blast-hits together...done
>calculating gene order alignments...Argument "Ultra336" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>chaining blast-hits together...done
>calculating gene order alignments...Argument "Ultra222" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>chaining blast-hits together...done
>calculating gene order alignments...Argument "Ultra56" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>chaining blast-hits together...done
>calculating gene order alignments...Argument "Contig1209" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>chaining blast-hits together...done
>calculating gene order alignments...Argument "Ultra67" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>chaining blast-hits together...done
>calculating gene order alignments...Argument "Ultra505" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>chaining blast-hits together...done
>calculating gene order alignments...Argument "Ultra462" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>chaining blast-hits together...done
>calculating gene order alignments...Argument "X1" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/lib/perl5/5.8.8/SynBlast/MySyntenyAln.pm line 465.
done
>fetching global-besthit data for all queries against Homo_sapiens...done
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000176201, targetOrg=Homo_sapiens)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000109819, targetOrg=Homo_sapiens)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000109606, targetOrg=Homo_sapiens)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000109610, targetOrg=Homo_sapiens)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000181982, targetOrg=Homo_sapiens)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000153012, targetOrg=Homo_sapiens)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000109618, targetOrg=Homo_sapiens)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000038210, targetOrg=Homo_sapiens)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000168228, targetOrg=Homo_sapiens)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000053900, targetOrg=Homo_sapiens)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000157765, targetOrg=Homo_sapiens)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000091490, targetOrg=Homo_sapiens)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000180408, targetOrg=Homo_sapiens)...none
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000168214, targetOrg=Homo_sapiens)...ok
>fetching EnsemblCompara-homologs for (GeneID=ENSG00000163394, targetOrg=Homo_sapiens)...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
>"ENSG00000109606-homologs/comparaHits/Monodelphis_domestica.ENSMODP00000000619.fa" did already exist, skip downloading...
>"ENSG00000109606-homologs/unknownHits/Monodelphis_domestica.ENSMODP00000026037.fa" did already exist, skip downloading...
>"ENSG00000109606-homologs/comparaHits/Monodelphis_domestica.ENSMODP00000018968.fa" did already exist, skip downloading...
>"ENSG00000109606-homologs/comparaHits/Ornithorhynchus_anatinus.ENSOANP00000010667.fa" did already exist, skip downloading...
>"ENSG00000109606-homologs/comparaHits/Ornithorhynchus_anatinus.ENSOANP00000028345.fa" did already exist, skip downloading...
Note: comparaResult did not give exactly one result type (between_species_paralog and ortholog_one2one for target Ornithorhynchus_anatinus)!
Argument "Ultra505" isn't numeric in int at /homes/bierdepot/joe/MyLocalSrcDir/perl/bin/doSyntenyAlignment.pl line 1032.
>"ENSG00000109606-homologs/comparaHits/Homo_sapiens.ENSP00000336741.fa" did already exist, skip downloading...
>"ENSG00000109606-homologs/comparaHits/Homo_sapiens.ENSP00000336741.fa" did already exist, skip downloading...
>"ENSG00000109606-homologs/comparaHits/Homo_sapiens.ENSP00000336741.fa" did already exist, skip downloading...
>"ENSG00000109606-homologs/comparaHits/Homo_sapiens.ENSP00000262415.fa" did already exist, skip downloading...
>"ENSG00000109606-homologs/comparaHits/Homo_sapiens.ENSP00000331907.fa" did already exist, skip downloading...
>"ENSG00000109606-homologs/unknownHits/Homo_sapiens.ENSP00000262477.fa" did already exist, skip downloading...
>"ENSG00000109606-homologs/unknownHits/Homo_sapiens.ENSP00000339569.fa" did already exist, skip downloading...
>"ENSG00000109606-homologs/unknownHits/Homo_sapiens.ENSP00000225296.fa" did already exist, skip downloading...
>"ENSG00000109606-homologs/unknownHits/Homo_sapiens.ENSP00000343442.fa" did already exist, skip downloading...
>"ENSG00000109606-homologs/unknownHits/Homo_sapiens.ENSP00000379094.fa" did already exist, skip downloading...
>"ENSG00000109606-homologs/unknownHits/Homo_sapiens.ENSP00000330091.fa" did already exist, skip downloading...