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Commit 971d62df authored by Tiago Grego's avatar Tiago Grego
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cleanup and comments

parent 47560a27
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2 merge requests!79ensembl Utils::IO into ensembl-io,!79ensembl Utils::IO into ensembl-io
...@@ -27,22 +27,17 @@ use Bio::EnsEMBL::Test::MultiTestDB; ...@@ -27,22 +27,17 @@ use Bio::EnsEMBL::Test::MultiTestDB;
use Bio::EnsEMBL::CoordSystem; use Bio::EnsEMBL::CoordSystem;
use Bio::EnsEMBL::Slice; use Bio::EnsEMBL::Slice;
use Bio::EnsEMBL::Utils::IO::FASTASerializer; use Bio::EnsEMBL::Utils::IO::FASTASerializer;
use Bio::EnsEMBL::Utils::IO::GFFSerializer; use Bio::EnsEMBL::Utils::IO::GFFSerializer;
use Bio::EnsEMBL::Utils::IO::GTFSerializer;
use Bio::EnsEMBL::Utils::IO::BEDSerializer;
use Bio::EnsEMBL::IO::Writer; use Bio::EnsEMBL::IO::Writer;
use Bio::EnsEMBL::IO::Translator::Gene; use Bio::EnsEMBL::IO::Translator::Gene;
use Bio::EnsEMBL::IO::Writer::GFF3; use Bio::EnsEMBL::IO::Writer::GFF3;
use Bio::EnsEMBL::IO::Object::GXFMetadata; use Bio::EnsEMBL::IO::Object::GXFMetadata;
use Bio::EnsEMBL::Utils::IO::GTFSerializer;
use Bio::EnsEMBL::IO::Writer::GTF; use Bio::EnsEMBL::IO::Writer::GTF;
use Bio::EnsEMBL::Utils::IO::BEDSerializer;
use Bio::EnsEMBL::IO::Writer::BED; use Bio::EnsEMBL::IO::Writer::BED;
use Smart::Comments;
# Get a DBAdaptor to from the test system # Get a DBAdaptor to from the test system
...@@ -67,6 +62,8 @@ is(ref @{$genes}[0], 'Bio::EnsEMBL::Gene', "Gene objects loaded successfully"); ...@@ -67,6 +62,8 @@ is(ref @{$genes}[0], 'Bio::EnsEMBL::Gene', "Gene objects loaded successfully");
# ensembl-io FASTA writer is currently non-functional
# # FASTA # # FASTA
# { # {
# my ($utils_output, $ensio_output); # my ($utils_output, $ensio_output);
...@@ -227,7 +224,7 @@ is(ref @{$genes}[0], 'Bio::EnsEMBL::Gene', "Gene objects loaded successfully"); ...@@ -227,7 +224,7 @@ is(ref @{$genes}[0], 'Bio::EnsEMBL::Gene', "Gene objects loaded successfully");
# ensembl-io and utils-io BED writers seem to produce different BED formats. Investigation needed.
# # BED # # BED
# { # {
# my ($utils_output, $ensio_output); # my ($utils_output, $ensio_output);
......
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