 spficklin
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3ab974ee52
Added a new tripal_set_active_db function to replace Drupal's set_active_db function. This function allows Tripal to use a chado database in an external location or a chado database within another schema within the Drupal database. This keeps backwards compatibility with older versions of Tripal.
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14 years ago |
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spficklin
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de147f903a
OBO loader is now functional.
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14 years ago |
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spficklin
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355491bdfa
Addded the OBO loader to the tripal_cv module and created an online form for starting OBO parsing jobs
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14 years ago |
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spficklin
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ae11500354
Movoed obo_loader.php to tripal_cv
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14 years ago |
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spficklin
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5f1f2e560f
Moved the OBO loader to the tripal_cv module
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14 years ago |
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spficklin
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20eeab6223
Added the beginning stages of an OBO loader. So far, loads CVterms, cvterm_relationships, cvterm_dbxrefs and cvtermprops.
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14 years ago |
 ccheng
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efeef2c916
fixed a bug for displaying up/down arrow icons when toggling all expandable boxes.
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14 years ago |
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spficklin
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5e7b3c4b74
Fixed a bug in chado loader
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14 years ago |
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spficklin
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372e4626ba
Added the first stages of a chado loader. So far, the additions will load chado v1.11 into a 'chado' schema within the same database that Drupal is installed. It also populates the tables with the same data when using the perl scripts.
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14 years ago |
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spficklin
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87318da4f6
Fixed more bugs
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14 years ago |
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spficklin
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53420365ff
Fixed a few bugs in tripal_db module
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14 years ago |
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spficklin
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3a26c1cb26
Fixed a few minor bugs in CV module
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14 years ago |
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spficklin
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609262cb3d
Theme fixes
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14 years ago |
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spficklin
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171730108c
Added back in the generic vocabulary browser
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14 years ago |
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spficklin
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5416d9c6e3
Added a user name column to the jobs table
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14 years ago |
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spficklin
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cb72de24bb
Added an interface for editing the controlled vocabularies in the tripal_cv module. We still need something to add/edit terms. Also, fixed the interface for updating the cvtermpath table so that a user can select which ontology/vocabulary to update.
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14 years ago |
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spficklin
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4fb63ec2d8
Changed the database module so that it functions as an AJAX enabled drop-down rather than a large table.
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14 years ago |
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ccheng
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db70fc1dc6
fixed problems where strcmp() expects a string, not an array.
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14 years ago |
 mestato
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678799b710
Removed ORF link from html when it is being parsed.:
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14 years ago |
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mestato
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aa979332af
Fixed called by reference errors.
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14 years ago |
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mestato
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6698546c6e
When processing the html from an interProScan job, empty tables are removed from the output. Also, empty rows in tables are removed.
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14 years ago |
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mestato
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e6feb5a9b6
Moved the synchronize functions from the main module to syncFeatures.php. Moved the search indexing functions to indexFeatures.php. This allows each sync or index job to be submitted as a separate system call, thus circumventing a problem with php not releasing memory. Also, syncing and indexing all features may now be done through a command line call instead of only through the web interface.
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14 years ago |
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mestato
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3d46597777
Removed materialized view unigene_libraries_mview. This mview exited to associate a unigene with all
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14 years ago |
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mestato
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832463e97e
The syncing method now tries to figure out what type of analysis is being synchronized by checking the cvterm "analysis_type". This cvterm should be added to each analysis by the individual analysis modules or the user if the upload is directly into chado. The value for this cvterm should reflect the name of the module, "tripal_analysis_unigene", "tripal_analysis_blast", etc.
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14 years ago |
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mestato
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6729e33bcd
Added missing } on line 469.
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14 years ago |
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mestato
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61a9834df0
Add abililty for analysis module to detect a unigene-type analysis. Previously made unigene type analyses into generic type analyses.
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14 years ago |
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mestato
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442a75c16a
Fixed typo where interval was missing dollar sign.
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14 years ago |
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mestato
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14dde24292
The validate function now handles three schenarios:
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14 years ago |
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mestato
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4e3a64a161
Complete revision fo the cleanup method. Still deletes any orphans between node and chado_analysis in drupal but also checks for orphans without records in chado.
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14 years ago |
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mestato
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60d7f0e812
Fixed internal script reference to itself from tripal_job_launcher.php to tripal_jobs_launch_multi.php.
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14 years ago |
