Revision history for PomBase-Chobo
0.040 2024-06-06 16:17:14
Fix merging bug when an alt_id matches an obsolete term
0.039 2023-06-17 22:14:38
Parse and store dbxrefs from the xref: lines
0.038 2023-02-21 17:54:07
Fix handling of UTF-8 encoded OBO files
0.037 2022-04-02 16:37:50
Store feature_field fields in cvtermprops
0.036 2022-01-04 10:15:23
Add special case to make sure that all part_of terms are merged
0.035 2021-12-21 16:24:41
When merging terms, fix garbage generated when one of the
terms has no definition
0.034 2021-12-08 16:17:33
Store the "consider" attribute as a cvtermprop
0.033 2021-03-19 16:06:08
Don't load obsolete relation terms
0.032 2020-12-26 20:32:43
Filter alt_ids from the definition xrefs to avoid
duplicate key violations
0.031 2020-12-24 13:52:54
Store the "replaced_by" property as a cvtermprop
0.030 2020-12-24 13:34:14
Fix bug caused by de-quoting change in v0.028
0.029 2020-12-22 00:39:02
Fix check for duplicate cvterm definition dbxrefs
0.028 2020-12-16 12:20:19
Remove backslash escapes in dbxref accessions
0.027 2020-12-11 16:06:38
Catch colon at start or end of relationship name
0.026 2018-11-01 17:15:07
Don't merge an obsolete term with a non-obsolete using alt_id
0.025 2018-11-01 16:12:28
Ignore alt_ids on obsolete terms
See: https://github.com/pombase/chobo/issues/14
0.024 2018-10-26 08:29:17
Require Clone version 0.41 to avoid crash
0.023 2018-10-25 16:40:14
Remove dependency on List::Util
0.022 2018-10-19 11:27:38
Fixes to cope with the disease ontology OBO file
0.021 2018-02-20 18:06:18
Require an even more recent version of List::Util to prevent
test failures.
0.020 2018-02-19 15:19:37
Warn if "def:" lines differ when merging terms
0.019 2018-02-16 18:10:46
Require a version of List::Util that has the uniq() function to
prevent failures on older Perls.
0.018 2018-02-14 20:06:21
Fixes several bugs we storing dbxrefs from "def:" lines
0.017 2018-02-14 17:28:35
Fix bug handling odd dbxrefs that have no accession
0.016 2018-02-14 17:16:01
Store dbxrefs for term definitions
0.015 2018-02-14 11:05:39
Bug fix: allow single character synonyms (eg. "I" from so-simple.obo)
0.014 2018-02-13 23:43:39
Allow escaped double quotes in synonyms - example from chebi.obo:
"alpha-GalCer-6\"-(4-chlorophenyl)carbamate" RELATED [ChEBI:]
0.013 2018-02-13 20:22:12
Store the data-version from the OBO file in the cvprop table
0.012 2017-02-22 11:36:03
Exit with a non-zero code when parsing or loading fails
0.011 2016-08-18 13:09:42
Ignore trailing modifiers - See section "Trailing Modifiers" in:
ftp://ftp.geneontology.org/pub/go/www/GO.format.obo-1_4.shtml#S.1.4
0.010 2016-08-11 11:18:33
Append "(obsolete)" to names of obsolete terms hen storing
0.009 2016-07-21 20:34:13
Fix parsing for stanzas that have no subset: lines
0.008 2016-07-21 20:24:28
Doc fixes
Fix term synonyms parsing and add a test for it
Add subsets() and is_obsolete() methods to OntologyTerm
0.007 2016-07-20 21:20:12
Fix OBO parser to read def: and comment: lines
Store definition in cvterm rows
0.006 2016-06-13 12:34:29
Use "relations" as the CV name for RO, see:
https://github.com/GMOD/Chado/issues/17
Documentation improvements
0.005 2016-06-08 15:47:33
Improve README.pod
Improve chobo_load docs
The dbi:Pg: prefix on the database name is now optional
0.004 2016-06-05 16:10:46
Handle reloading cv, db and dbxref rows
Check constraints after inserting each row in the test DB
0.003 2016-06-02 14:46:28
Now explicity require Perl v5.20
(Internal) Builds correctly on Travis-CI
0.002 2016-06-01 21:58:33
Fixed installation of chobo_load by removing Build.PL
0.001 2016-06-01 21:02:38
Initial release