Ecosyste.ms: Issues

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GitHub / tripal/tripal issues and pull requests

#1700 - Tripal 4 sequence coordinate field

Pull Request - State: closed - Opened by pdtouch 7 months ago - 7 comments
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1699 - Remove unneeded "use" statements

Issue - State: open - Opened by dsenalik 8 months ago
Labels: Tripal 4, Group 10 - Performance

#1698 - Unable to prepare an existing chado database from Tripal 3

Issue - State: open - Opened by laceysanderson 8 months ago - 15 comments
Labels: bug - confirmed, Tripal 4, Group 0 - General Maintenance

#1697 - Chado Linker Analysis field

Pull Request - State: closed - Opened by dsenalik 8 months ago - 3 comments
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1696 - Restructure Prepare + add separate Import Type Collection

Pull Request - State: closed - Opened by laceysanderson 8 months ago - 7 comments
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields, Group 2 - Data Storage | Tripal DBX | Chado, Group 9 - Automated Testing

#1696 - Restructure Prepare + add separate Import Type Collection

Pull Request - State: open - Opened by laceysanderson 8 months ago - 5 comments
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields, Group 2 - Data Storage | Tripal DBX | Chado, Group 9 - Automated Testing

#1695 - All fields can now be added manually through GUI

Pull Request - State: closed - Opened by dsenalik 8 months ago - 1 comment
Labels: bug - confirmed, Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1695 - All fields can now be added manually through GUI

Pull Request - State: closed - Opened by dsenalik 8 months ago - 1 comment
Labels: bug - confirmed, Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1694 - Add formatter settings to fields that need them

Pull Request - State: closed - Opened by dsenalik 8 months ago - 1 comment
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1693 - Fix leftover typo in yaml

Pull Request - State: closed - Opened by dsenalik 8 months ago
Labels: bug - confirmed, Tripal 4, Group 1 - Tripal Content Types | Terms | Fields, Easy PR Review 😀

#1692 - Add formatter settings to fields that need them

Issue - State: closed - Opened by dsenalik 8 months ago
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1691 - Remove all '#type' => 'markup' because it doesn't do anything

Pull Request - State: closed - Opened by dsenalik 8 months ago
Labels: Tripal 4, Group 0 - General Maintenance, Easy PR Review 😀

#1690 - Add a default label for the Authored by field

Pull Request - State: closed - Opened by dsenalik 8 months ago
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields, Easy PR Review 😀

#1689 - The "Authored by" field is missing a title

Issue - State: closed - Opened by dsenalik 8 months ago
Labels: Good First Issue, Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1688 - Support two copies of a double-hop field (low priority)

Issue - State: open - Opened by dsenalik 8 months ago
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1687 - Cannot add description to project using GUI

Issue - State: closed - Opened by dsenalik 8 months ago - 1 comment
Labels: bug - confirmed, Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1686 - #type => markup doesn't do anything

Issue - State: closed - Opened by dsenalik 8 months ago - 1 comment
Labels: Good First Issue, Tripal 4, Group 0 - General Maintenance

#1685 - Database data type size specification in Tripal Field ChadoStorage properties for Integers

Issue - State: open - Opened by pdtouch 8 months ago - 1 comment
Labels: Tripal 4, Group 2 - Data Storage | Tripal DBX | Chado

#1684 - additional type widget regex fix

Pull Request - State: closed - Opened by dsenalik 8 months ago
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields, Easy PR Review 😀

#1683 - ChadoAdditionalType field widget can't handle CV terms with parentheses

Issue - State: closed - Opened by dsenalik 8 months ago
Labels: bug - confirmed, Good First Issue, Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1682 - Automated tests failing

Issue - State: closed - Opened by dsenalik 8 months ago - 1 comment
Labels: Tripal 4, Group 9 - Automated Testing

#1681 - Drupal 9 End of Life

Pull Request - State: closed - Opened by dsenalik 8 months ago - 5 comments
Labels: Tripal 4, Group 0 - General Maintenance

#1680 - Tripal 4 Chado Unit field tv4g1-issue1414-uo__unit

Pull Request - State: closed - Opened by pdtouch 8 months ago - 3 comments
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1679 - Do not display fopen error messages

Pull Request - State: closed - Opened by dsenalik 8 months ago - 2 comments
Labels: bug - confirmed, Tripal 4, Group 4 - Data Importing, Group 9 - Automated Testing

#1678 - Restructure Prepare with separate modules creating Content Types in mind

Issue - State: closed - Opened by laceysanderson 8 months ago
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1677 - Fixes to Importers focused on remote-term lookup

Pull Request - State: closed - Opened by laceysanderson 8 months ago - 4 comments
Labels: Tripal 4, Group 4 - Data Importing

#1676 - Migration Process

Issue - State: open - Opened by Ferrisx4 8 months ago - 1 comment
Labels: Tripal 3, Community - Discussion, Tripal 4, Group 0 - General Maintenance

#1675 - Our custom OBO file is trying to lookup borrowed terms even though all terms should be local.

Issue - State: closed - Opened by laceysanderson 8 months ago - 1 comment
Labels: bug - potential, Tripal 4, Group 4 - Data Importing

#1674 - Fixes to Tripal Importer Forms

Pull Request - State: closed - Opened by laceysanderson 8 months ago - 2 comments
Labels: bug - confirmed, Tripal 4, Group 4 - Data Importing

#1673 - Drupal 9 End of Life

Issue - State: closed - Opened by laceysanderson 8 months ago
Labels: Tripal 4, Group 0 - General Maintenance, Group 9 - Automated Testing

#1672 - OBO Importer form is currently broken

Issue - State: closed - Opened by laceysanderson 8 months ago
Labels: bug - confirmed, Tripal 4, Group 4 - Data Importing

#1671 - BUG FIX: ChadoAdditionalType field cannot handle multiple instances at once

Pull Request - State: closed - Opened by laceysanderson 8 months ago - 1 comment
Labels: bug - confirmed, Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1670 - Production-focused Tripal Docker

Issue - State: open - Opened by laceysanderson 8 months ago
Labels: Tripal 4, Group 0 - General Maintenance

#1669 - Tripal 4 chado additional type field can't handle two types at the same time

Issue - State: closed - Opened by dsenalik 8 months ago
Labels: bug - confirmed, Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1668 - Fix for issue #1661

Pull Request - State: closed - Opened by laceysanderson 8 months ago - 1 comment
Labels: bug - confirmed, Good First Issue, Group 2 - Data Storage | Tripal DBX | Chado, Easy PR Review 😀

#1667 - Clean-up and Testing of TripalEntity

Pull Request - State: closed - Opened by laceysanderson 9 months ago - 1 comment
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1666 - Property Field supports multiple property types on the same page

Pull Request - State: closed - Opened by laceysanderson 9 months ago - 4 comments
Labels: bug - confirmed, Tripal 4, Group 1 - Tripal Content Types | Terms | Fields, Group 2 - Data Storage | Tripal DBX | Chado

#1665 - Property Field Bug and reduce ChadoStorage complexity

Pull Request - State: closed - Opened by laceysanderson 9 months ago - 1 comment
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields, Group 2 - Data Storage | Tripal DBX | Chado

#1664 - Add dependency injection to the ChadoImporterBase

Pull Request - State: closed - Opened by carolyncaron 9 months ago - 1 comment
Labels: Tripal 4, Group 0 - General Maintenance

#1663 - ChadoStorage should support loading base values

Pull Request - State: closed - Opened by laceysanderson 9 months ago - 2 comments
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields, Group 2 - Data Storage | Tripal DBX | Chado

#1662 - ChadoStorage read value from base table

Issue - State: closed - Opened by laceysanderson 9 months ago - 1 comment
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields, Group 2 - Data Storage | Tripal DBX | Chado

#1661 - Undefined array key "version" in ChadoSchema->getSchemaDef() - message while testing new Field

Issue - State: closed - Opened by pdtouch 9 months ago
Labels: bug - confirmed, Tripal 4, Group 1 - Tripal Content Types | Terms | Fields, Group 2 - Data Storage | Tripal DBX | Chado

#1660 - TripalField Collection Service doesn't support unlimited cardinality

Issue - State: closed - Opened by laceysanderson 9 months ago - 1 comment
Labels: Group 1 - Tripal Content Types | Terms | Fields

#1659 - Support detailed upload file format descriptions

Pull Request - State: closed - Opened by laceysanderson 9 months ago - 4 comments
Labels: Tripal 4, Group 4 - Data Importing

#1657 - Removes duplicated importer metadata

Pull Request - State: closed - Opened by laceysanderson 10 months ago - 2 comments
Labels: Tripal 4, Group 4 - Data Importing, Easy PR Review 😀

#1655 - Ability to Disable TripalImporter submit button

Pull Request - State: closed - Opened by laceysanderson 10 months ago - 3 comments
Labels: Tripal 4, Group 4 - Data Importing, Easy PR Review 😀

#1654 - Extend materialized views functionality

Issue - State: open - Opened by reynoldtan 10 months ago
Labels: Tripal 4, Group 2 - Data Storage | Tripal DBX | Chado

#1653 - New Storage properties require addition to the schema YML

Issue - State: open - Opened by laceysanderson 10 months ago
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1652 - Disable submit button in Importer

Issue - State: closed - Opened by reynoldtan 10 months ago - 1 comment
Labels: Tripal 4, Group 4 - Data Importing

#1651 - Taxonomy Importer Expects a file

Issue - State: closed - Opened by spficklin 10 months ago - 2 comments
Labels: bug - confirmed, Good First Issue, Tripal 4

#1650 - Synonym Field

Pull Request - State: closed - Opened by spficklin 10 months ago - 4 comments
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1649 - Tripal 4 add additional infraspecific ranks from MCPD

Pull Request - State: closed - Opened by dsenalik 10 months ago - 2 comments
Labels: Tripal 4, Group 4 - Data Importing, Easy PR Review 😀

#1648 - Request to support additional abbreviations for infraspecific ranks

Issue - State: closed - Opened by carolyncaron 10 months ago - 3 comments
Labels: Tripal 4, Group 4 - Data Importing

#1647 - Tripal Content Listing is VERY SLOW when you have lots of content

Issue - State: closed - Opened by laceysanderson 10 months ago - 5 comments
Labels: bug - confirmed, PR Submitted, Tripal 4, Group 1 - Tripal Content Types | Terms | Fields, Group 2 - Data Storage | Tripal DBX | Chado, Group 10 - Performance

#1646 - Move function-focused legacy API into a separate core submodule

Issue - State: open - Opened by laceysanderson 10 months ago - 2 comments
Labels: Tripal 4, Group 0 - General Maintenance

#1645 - Tripal 3 backport importer bug fixes from Tripal 4

Pull Request - State: closed - Opened by dsenalik 10 months ago
Labels: Tripal 3, Group 4 - Data Importing

#1644 - Tripal 4 importer logging updates

Pull Request - State: closed - Opened by dsenalik 10 months ago - 2 comments
Labels: Tripal 4, Group 4 - Data Importing

#1643 - Tripal 3 backport some bugs fixed in Tripal 4

Issue - State: closed - Opened by dsenalik 10 months ago
Labels: Tripal 3, Group 4 - Data Importing

#1642 - Tripal 4 - Publication Importer - Attempt #2 - Building on Doug's work

Issue - State: open - Opened by risharde 10 months ago - 6 comments
Labels: Tripal 4, Group 4 - Data Importing

#1641 - Tripal 4 Assorted typo fixes

Pull Request - State: closed - Opened by dsenalik 10 months ago - 1 comment
Labels: Tripal 4, Group 0 - General Maintenance

#1640 - TripalImporter support for use_button is false

Pull Request - State: closed - Opened by laceysanderson 10 months ago - 1 comment
Labels: bug - confirmed, Tripal 4, Group 4 - Data Importing, Easy PR Review 😀

#1639 - TripalTokenParser Support for Drupal/Tripal Fields and Multi-value Fields

Issue - State: open - Opened by spficklin 10 months ago
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1638 - Fixed testing issue

Pull Request - State: closed - Opened by spficklin 10 months ago - 1 comment
Labels: Tripal 4, Group 4 - Data Importing

#1637 - Tripal 4 - Organism Image

Issue - State: open - Opened by Ferrisx4 10 months ago - 7 comments
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields, Group 2 - Data Storage | Tripal DBX | Chado

#1636 - Striving towards Drupal 10.1 Compatibility

Pull Request - State: closed - Opened by laceysanderson 10 months ago - 3 comments
Labels: Tripal 4, Group 9 - Automated Testing

#1635 - Tripal Importers only support cardinality of 1 (low priority)

Issue - State: open - Opened by dsenalik 10 months ago
Labels: bug - potential, Tripal 4, Group 4 - Data Importing

#1634 - Improve importer file descriptions (location + content)

Pull Request - State: closed - Opened by laceysanderson 10 months ago - 1 comment
Labels: Tripal 4, Group 4 - Data Importing, Group 9 - Automated Testing

#1633 - Add a Tripal 4 Pull request template

Pull Request - State: closed - Opened by dsenalik 10 months ago - 1 comment
Labels: Tripal 4, Group 0 - General Maintenance, Easy PR Review 😀

#1632 - Tripal 4 fields should link to entities

Issue - State: closed - Opened by dsenalik 10 months ago
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1631 - Tripal 4 Pub Importer

Issue - State: closed - Opened by risharde 10 months ago - 3 comments
Labels: Tripal 4, Group 4 - Data Importing

#1630 - Importer file validation improvements

Pull Request - State: closed - Opened by dsenalik 10 months ago - 9 comments
Labels: Tripal 4, Group 4 - Data Importing

#1629 - Tripal Importer class doesn't validate if a remote filepath exists

Issue - State: closed - Opened by carolyncaron 10 months ago - 3 comments
Labels: Tripal 4, Group 4 - Data Importing

#1628 - Tripal 3 National Ag Library importer no longer works

Issue - State: open - Opened by dsenalik 10 months ago
Labels: wontfix, Tripal 3, bug - external, Group 4 - Data Importing

#1627 - Indicating the operations a field + it's properties support

Issue - State: open - Opened by spficklin 10 months ago - 1 comment
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1626 - Importer File Descriptions are badly placed and not helpful descriptions in core

Issue - State: closed - Opened by laceysanderson 10 months ago
Labels: Tripal 4, Group 4 - Data Importing

#1625 - Support drupal fields by adding a DrupalSQLStorage implementation

Pull Request - State: closed - Opened by laceysanderson 10 months ago - 4 comments
Labels: bug - confirmed, Tripal 4, Group 1 - Tripal Content Types | Terms | Fields, Group 9 - Automated Testing

#1624 - Tripal 3 issue1573 php8.1 deprecation

Pull Request - State: closed - Opened by dsenalik 10 months ago - 2 comments
Labels: Tripal 3, Group 0 - General Maintenance, PHP8, Easy PR Review 😀

#1623 - Make some fields not required

Pull Request - State: closed - Opened by Ferrisx4 10 months ago - 1 comment
Labels: Tripal 4, Group 0 - General Maintenance, Easy PR Review 😀

#1622 - Tripal 3 delete stray "delete"

Pull Request - State: closed - Opened by dsenalik 10 months ago
Labels: Tripal 3, Group 1 - Tripal Content Types | Terms | Fields, Easy PR Review 😀

#1621 - Tripal 3: text left over from debugging

Issue - State: closed - Opened by dsenalik 10 months ago
Labels: Tripal 3, Group 1 - Tripal Content Types | Terms | Fields

#1620 - Tv4g0 issue1614 issue template forms

Pull Request - State: closed - Opened by Ferrisx4 10 months ago - 1 comment
Labels: Tripal 4, Group 0 - General Maintenance

#1619 - Sequence length + Md5sum fields

Pull Request - State: closed - Opened by pdtouch 10 months ago - 6 comments
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1618 - Newick Importer

Pull Request - State: closed - Opened by risharde 11 months ago - 12 comments
Labels: Tripal 4, Group 4 - Data Importing

#1617 - Tripal 4 php8.2 deprecations (part 4)

Pull Request - State: closed - Opened by dsenalik 11 months ago - 1 comment
Labels: bug - confirmed, Tripal 4, Group 0 - General Maintenance, PHP8, Easy PR Review 😀

#1616 - Check that all field properties are set in field widgets

Issue - State: open - Opened by spficklin 11 months ago
Labels: Good First Issue, Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1615 - Tripal 4: Tripal Display Suite & Field Group usage

Issue - State: closed - Opened by Ferrisx4 11 months ago - 4 comments
Labels: Tripal 4, Group 7 - Page Display

#1614 - Tripal Github Issue Template Forms - Feature Request

Issue - State: closed - Opened by Ferrisx4 11 months ago - 9 comments
Labels: Tripal 4, Group 0 - General Maintenance

#1613 - Drush command to create Tripal + Chado Fields

Pull Request - State: closed - Opened by laceysanderson 11 months ago - 2 comments
Labels: Group 1 - Tripal Content Types | Terms | Fields, Group 2 - Data Storage | Tripal DBX | Chado

#1612 - TripalStorage doesn't support Tripal fields using Drupal Storage

Pull Request - State: closed - Opened by laceysanderson 11 months ago - 4 comments
Labels: Group 1 - Tripal Content Types | Terms | Fields, Group 2 - Data Storage | Tripal DBX | Chado

#1611 - TripalStorage doesn't support fields using Drupal Storage

Issue - State: closed - Opened by laceysanderson 11 months ago
Labels: bug - confirmed, Tripal 4, Group 1 - Tripal Content Types | Terms | Fields, Group 2 - Data Storage | Tripal DBX | Chado

#1610 - TripalTokenParser Class

Pull Request - State: closed - Opened by spficklin 11 months ago - 11 comments
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields, Group 2 - Data Storage | Tripal DBX | Chado

#1609 - Tripal Field Token Replacement Service

Issue - State: closed - Opened by spficklin 11 months ago
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1608 - Job Progress Issues

Issue - State: open - Opened by spficklin 11 months ago
Labels: Good First Issue, Tripal 4, Group 3 - Job Management

#1607 - Tripal 4 Fields: Sequence Length + Sequence Checksum

Pull Request - State: closed - Opened by pdtouch 11 months ago - 3 comments
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1606 - Drush command to create Chado Fields.

Issue - State: open - Opened by laceysanderson 11 months ago
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1605 - Tool API

Issue - State: open - Opened by spficklin 11 months ago
Labels: Tripal 4, Group 8 - Other Integrations

#1604 - Better Debugging of ChadoStorage for Field Development

Pull Request - State: closed - Opened by laceysanderson 11 months ago - 4 comments
Labels: Tripal 4, Group 1 - Tripal Content Types | Terms | Fields

#1603 - Tripal 4 gff3 loader use cvterm lookup during run

Pull Request - State: closed - Opened by dsenalik 11 months ago - 2 comments
Labels: Tripal 4, Group 4 - Data Importing