Stephen Ficklin

Exception in thread "main" java.lang.NullPointerException

2

When using apgdiff I get the following error: Exception in thread "main" java.lang.NullPointerException at cz.startnet.utils.pgdiff.parsers.CommentParser.parseIndex(CommentParser.java:144) at cz.startnet.utils.pgdiff.parsers.CommentParser.parse(CommentParser.java:50) at cz.startnet.utils.pgdiff.loader.PgDumpLoader.loadDatabaseSchema(PgDumpLoader.java:200) at cz.startnet.utils.pgdiff.loader.PgDumpLoader.loadDatabaseSchema(PgDumpLoader.java:236) at cz.startnet.utils.pgdiff.PgDiff.createDiff(PgDiff.java:29) at cz.startnet.utils.pgdiff.Main.main(Main.java:39) I'm using apgdiff version 2.4...

postLoad function for TripalField

4

### Task Description There are cases where more complicated quries may need to be run and `ChadoStorage` just can't deal with them and we don't want to program every possible...

### Tripal Version 4/x ### Drupal Version 10/2 ### PostgreSQL Version N/A ### PHP Version N/A ### General Description If you are building a new content type via the Drupal...

Checking for new fields

4

## Issue Description In Tripal v3 we had the option to add new fields to a content type. A site admin would go to the content type page, manage the...

Split the Taxonomy Importer

1

### Task Description Currently, the Taxonomy Importer does two things 1. It queries NCBI to pull properties for organisms in Chado 2. It constructs a taxonomic tree using the information...

### Task Description The new `tripal_layout` module is in need of testing. It was merged with PR #1792 but how to add the functional tests is not clear. Rather than...

### Task Description This item is included in issue #1794 but this is the only item in the list provided on that issue that the PMC wants to include in...

Indicating the operations a field + it's properties support

1

### Task Description The `StoragePropertyTypeBase` class houses the operations that a property supports. These are used for building database queries and later for searching via ElasticSearch and include the following...

Creation of a tripal_genome extension module and docs repository

2

I want to propose to move out the GFF3 and FASTA loaders (and perhaps) others into a `tripal_genome` extension module. This way, core Tripal really is just core code. We...

If the user creates a Vocabulary or IDSpace it will automatically add the records to the `tripal_vocabulary_collection` table. This in turn will call `ChadoIdSpace::create()` and `ChadoVocabulary::create()` function respectively and those...