 Risharde Ramnath
|
bba096323a
Fixed a mix up of validation for ID which should have been for seqid. Removed validation for ID. Altered tests to properly work. Added new test for invalid character in seqid/landmark id
|
%!s(int64=4) %!d(string=hai) anos |
|
Risharde Ramnath
|
5278d2a50b
Fix for GFF if phase value is invalid + unit tests for the gff phase column that checks for valid and invalid characters
|
%!s(int64=4) %!d(string=hai) anos |
|
Risharde Ramnath
|
d25737f6e4
GFF loader modification to throw error if strand character is invalid. Added unit test with an invalid strand gff to confirm it works.
|
%!s(int64=4) %!d(string=hai) anos |
|
Risharde Ramnath
|
ea8b4a0b58
GFF fix for strands that are specified as question marks + finish php unit test for strands
|
%!s(int64=4) %!d(string=hai) anos |
|
Risharde Ramnath
|
da939901ea
Fixed ID regular expression check in GFF loader, added new test for invalid start end values and corresponding test gff file
|
%!s(int64=4) %!d(string=hai) anos |
|
Risharde Ramnath
|
49651d6c8a
Better ID validation check within the GFF3 loader
|
%!s(int64=4) %!d(string=hai) anos |
|
Risharde Ramnath
|
fefe37536c
Minor fix regarding whitespace detection in GFF3 importer ID validation
|
%!s(int64=4) %!d(string=hai) anos |
|
Risharde Ramnath
|
5e98649061
2 additional unit tests and corresponding gff files related to ID validations for unescaped whitespaces and IDs beginning with right arrow character
|
%!s(int64=4) %!d(string=hai) anos |
 Stephen Ficklin
|
8b0cfedbe4
Added check for Gap in the GFF
|
%!s(int64=4) %!d(string=hai) anos |
|
Risharde Ramnath
|
bde6690233
Bug fix that makes GFFImporter caching of features work correctly
|
%!s(int64=4) %!d(string=hai) anos |
|
Stephen Ficklin
|
4ef5653ee0
Fixed caching bug and cleaned up memory leaks
|
%!s(int64=4) %!d(string=hai) anos |
|
Stephen Ficklin
|
0ab2db8eb1
Now FASTA sequences are being added... all done except testing!
|
%!s(int64=4) %!d(string=hai) anos |
|
Stephen Ficklin
|
2a7510c736
Now supports creation of proteins and tarets
|
%!s(int64=4) %!d(string=hai) anos |
|
Stephen Ficklin
|
dbedaf88b0
GFF3 loader: Added file caching to reduce memory requirements. Added insert to analyisfeature table
|
%!s(int64=4) %!d(string=hai) anos |
|
Stephen Ficklin
|
f2bd2bb030
Fixed bugs in GFF loader when landmarks are present and with finding feature property CV terms
|
%!s(int64=4) %!d(string=hai) anos |
|
Stephen Ficklin
|
d14083521c
minor updates
|
%!s(int64=4) %!d(string=hai) anos |
|
Stephen Ficklin
|
935339fe50
Uncommented FASTA loading
|
%!s(int64=4) %!d(string=hai) anos |
|
Stephen Ficklin
|
f48925d9ff
Improved memory performance, now supports updates to existing records
|
%!s(int64=4) %!d(string=hai) anos |
|
Stephen Ficklin
|
7ddece2def
Now supporting the organism attribute
|
%!s(int64=4) %!d(string=hai) anos |
|
Stephen Ficklin
|
70ca9bb46e
periodic checkin
|
%!s(int64=4) %!d(string=hai) anos |
|
Stephen Ficklin
|
2c9f613b93
Now supporting Ontology_term
|
%!s(int64=4) %!d(string=hai) anos |
|
Stephen Ficklin
|
ad24a2ad57
Periodic checkin. Fixed quite a few issues and simplified some code
|
%!s(int64=4) %!d(string=hai) anos |
 Peter Richter
|
87b3e15dbf
Add loadFastas functionality in GFF3Importer
|
%!s(int64=4) %!d(string=hai) anos |
|
Peter Richter
|
0f922ac4ff
Update GFF3Importer - Load Derives_froms
|
%!s(int64=4) %!d(string=hai) anos |
|
Peter Richter
|
e8548ad31a
Uncomment actual insertion of FeatureLocs batch
|
%!s(int64=4) %!d(string=hai) anos |
|
Peter Richter
|
7ef8a2b7e6
Get sequence cv from $this->feature_cv
|
%!s(int64=4) %!d(string=hai) anos |
|
Peter Richter
|
c599975d97
Use corrected fmax
|
%!s(int64=4) %!d(string=hai) anos |
|
Peter Richter
|
59154d4900
Fix assignFeatureIDs
|
%!s(int64=4) %!d(string=hai) anos |
|
Peter Richter
|
fe28ce4bf7
Update GFF3Importer - Load Dbxrefs
|
%!s(int64=4) %!d(string=hai) anos |
|
Stephen Ficklin
|
7f25c0f0dc
Updates to the GFF3 loader
|
%!s(int64=4) %!d(string=hai) anos |
