 Stephen Ficklin
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482400e042
Fixed bug in GFF loader
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10 years ago |
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Stephen Ficklin
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79a285a74c
Changed default in GFF loader function
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10 years ago |
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spficklin
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21b40fa629
Fixed GFF loader to give features with no ID a generic name with 1-based coordinates
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11 years ago |
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Stephen Ficklin
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086eb4b649
Fixed bug in sequence retreval API function if parent has no residues
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11 years ago |
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spficklin
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1156b83efb
Added support for 'organism=genus:speices' attribute for importing GFF files
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11 years ago |
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spficklin
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e557f16da4
Added specific handling of Patent type publications. Fixed the tpub.obo as some of the accessions were missing the colon between the DB name and number.
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11 years ago |
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spficklin
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2756a7cce1
Added brackets around all table names in SQL statements throughout all of Tripal
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11 years ago |
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spficklin
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fc8149faec
Updated the GFF loader to add a date timestamp to the uniquename if none is provided in the GFF file. This ensures that the value will always be unique. Also, updated the GFF file to use the landmark_type provided by the user to look for the landmark if one is provided. Also changed the GFF loader so that it will recognize an entry for landmark using either the uniquename or the name
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11 years ago |
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spficklin
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c423725e2a
Updated Doxygen comments
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11 years ago |
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spficklin
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cf8e652b36
Fixed GFF loader for deleting entries in a GFF file. It was broken
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11 years ago |
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spficklin
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c0f8f4256a
Fixed jobs report so that it updates job status whenever the page is loaded. Previously it only updated job status when a job was launched
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11 years ago |
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spficklin
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4560a2dce9
Made some additional bug fixes and improvements to the GFF loader
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11 years ago |
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spficklin
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8924d71248
Added support to the GFF loader for specifying target species and tyeps
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11 years ago |
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spficklin
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8098c77257
Fixed memory leaks in OBO loader.
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11 years ago |
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spficklin
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09b02611ed
Fixed memory leaks in the Tripal core API when storing the persistent connection. Alos fixed memory leaks in GFF loader and added loading of FASTA sequences embeded in the GFF file ##FASTA section
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11 years ago |
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spficklin
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d702ccbc99
Bug fix with GFF loader
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11 years ago |
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spficklin
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42fe28540f
Fixed issue #1712422. Changed all Chado querie to use chado_query() rather than db_query()
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11 years ago |
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spficklin
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969e4bbb18
Fixed bugs in GFF loader when parsing Target= attribute
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12 years ago |
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spficklin
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ad26575c11
Fixed bug when adding properties from GFF loader
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12 years ago |
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spficklin
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bcd4a7eb2a
The OBO loader had a problem where it wouldn't add synonyms. It was a bug in the code. Should be fixed
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12 years ago |
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spficklin
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cd87d5a56a
Fixed Drupal formatting standards
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12 years ago |
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spficklin
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2a743acf56
Made transactions optional in GFF loader. Changed all appropriate db_queryt to chado_query in feature module. Added a drush command to sync a single feature (useful for debugging/testing).
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12 years ago |
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spficklin
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02155ecfe5
Fixed bug in GFF loader
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12 years ago |
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spficklin
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c5da76a2b4
Fixed bug in GFF loader
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12 years ago |
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spficklin
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f21a622d67
Fixed bug in GFF loader
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12 years ago |
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spficklin
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65f09f1e86
Fixed bug in GFF loader
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12 years ago |
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spficklin
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d72c084643
Formatting changes for loaders output text
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12 years ago |
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spficklin
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23f40ae194
Formatting changes for loaders output text
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12 years ago |
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spficklin
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4a94fafe40
Fixed FASTA loader to use new API, transactions and stored procedures. Also fixed a few more memory leaks on GFF loader
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12 years ago |
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spficklin
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7617a8ed44
Fixes to GFF loader and feature install module
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12 years ago |
