galaxy-iuc standards issues

galaxy-iuc / standards

Documentation for standards and best practices from the Galaxy IUC

http://galaxy-iuc-standards.readthedocs.io/en/latest/

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issues

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Subcommands recommendation

#77 bernt-matthias closed 5 months ago
1
Add bio.tools/EDAM section to tool_xml.rst

#76 supernord closed 9 months ago
6
Introduce `creator` tag in `xml_order` in top level tool.xml file

#75 hechth opened 1 year ago
3
Rewrite best practices to encourage tabs

#74 hexylena opened 1 year ago
10
Tabs should be permitted, maybe even mandatory.

#73 hexylena opened 1 year ago
5
Clarify how `license` tags should be used for tools

#72 elichad opened 1 year ago
5
Remove outdated Tool Dependency Package section

#71 nsoranzo closed 2 years ago
0
Tool dependency packages section out of date

#70 elichad closed 2 years ago
1
Sync xrefs position in tool XML order with galaxy-tool-util

#69 nsoranzo closed 2 years ago
0
Fix typo

#68 abretaud closed 2 years ago
0
Modify recommended test data sets size

#67 gallardoalba closed 2 years ago
10
Guidelines for additional output parameters

#66 bernt-matthias opened 2 years ago
3
Specifying a tool maintainer in `.shed.yml` files

#65 simonbray opened 3 years ago
3
Documentation of the commands to run to test a tool

#64 bebatut opened 3 years ago
0
require zipped data if possible

#63 bernt-matthias closed 2 years ago
2
Require a recent profile in IUC guide lines

#62 bernt-matthias closed 3 years ago
0
Fix links to travis in docs

#61 bernt-matthias closed 3 years ago
1
Add docs for xrefs and EDAM best practices

#60 hmenager closed 3 years ago
1
Proposal: recommend defining a @VERSION_SUFFIX@ token in addition to a @TOOL_VERSION@ token

#59 simonbray closed 3 years ago
23
Suggestion for an order of IDs/links annotations

#58 matuskalas opened 4 years ago
7
Recommend not redirecting stderr

#57 mvdbeek opened 4 years ago
1
Recommendations on arbitrary parameter fields (security risks?)

#56 peterjc opened 5 years ago
2
update for argument rules

#55 bernt-matthias closed 4 years ago
0
Versioning scheme improvements

#54 bernt-matthias closed 5 years ago
2
Change "Tool on data N" output file naming to something without spaces?

#53 mblue9 opened 6 years ago
2
Recommend tool `version` format

#52 nsoranzo closed 6 years ago
22
Tool versions vs wrapper versions

#51 Slugger70 closed 6 years ago
39
Coding style improvements

#50 nsoranzo closed 6 years ago
1
When should we write separate scripts and when should we use configfiles

#49 mvdbeek opened 6 years ago
2
More suggested edits for checklist

#48 mblue9 closed 6 years ago
1
Fix checklist for tool-data

#47 mblue9 closed 6 years ago
10
Need $PATH_TO_IMAGES for images in tool help

#46 peterjc closed 7 years ago
4
EDAM ontology topics should be applied to tools

#45 hexylena opened 7 years ago
2
Recommend $input.extra_files_path vs $output.files_path

#44 peterjc closed 7 years ago
1
indentation in CDATA blocks like command and help

#43 peterjc opened 7 years ago
5
Use `<section>` for advanced options

#42 nsoranzo closed 6 years ago
8
Add `argument` to the suggested param attribute order

#41 nsoranzo closed 7 years ago
2
file_path vs extra_file_path

#40 martenson closed 7 years ago
7
Update suggested param attribute order

#39 nsoranzo closed 7 years ago
0
Advanced options (clear conditional labels vs collapsed section)

#38 peterjc closed 6 years ago
3
Formalize container best practice (esp. for complex tools)

#37 jmchilton opened 7 years ago
5
Recommendations on bundling related tools in one Tool Shed repository?

#36 peterjc opened 7 years ago
4
xsd:boolean does not allow True.

#35 bgruening opened 7 years ago
4
Fix links

#34 nsoranzo closed 7 years ago
1
Clarify that also Cheetah code should be indented

#33 nsoranzo closed 7 years ago
3
Clarify use of booleans and conditionals for dynamic options

#32 lparsons closed 7 years ago
1
Add links and info about testing failure states and output filters.

#31 jmchilton closed 7 years ago
2
Every tool needs a requirement?

#30 bgruening opened 8 years ago
6
Bug squashing since we talked about this repo a bit at GCC

#29 hexylena closed 8 years ago
3
IUC Needs a Logo

#28 hexylena closed 6 years ago
7