idr_download bug fixes

[sunyi000]

FOR CONTRIBUTOR:

• [x ] I have read the CONTRIBUTING.md document and this tool is appropriate for the tools-iuc repo.
• [x ] License permits unrestricted use (educational + commercial)
• This PR adds a new tool or tool collection
• [x ] This PR updates an existing tool or tool collection
• This PR does something else (explain below)

• increase the pylibtiff version to fix some bugs.
• fix xml linting warnings
• increase the galaxy profile version

@bgruening could you please have a look at this? thank you

[bgruening]

In general looks good, but tests are failing.

[bgruening]

The profile version is very recent, you will exclude a few galaxy servers that have not been updated in the last days. 23.0 or 23.1 should be ok.

[bernt-matthias]

Is it known why the collection element names changed?

[sunyi000]

Is it known why the collection element names changed?

I didn't change the names, but the orders. The planemo test is complaining about output order is wrong, so I moved the first element to the last.

[sunyi000]

I got confused a bit.

with conda resolution
planemo test . give successful results
without conda resolution
planemo test --biocontainers . give failed test results

how should I solve this? Thanks

[bgruening]

Maybe a dependency is missing? Container tests are more strict and maybe it complains about a missing dependency ?

[sunyi000]

Maybe a dependency is missing? Container tests are more strict and maybe it complains about a missing dependency ?

yes, it complains about libtiff no module found, which is part of the pylibtiff package already specified in the requirements

[sunyi000]

I found these:

with planemo test --biocontainers . pylibtiff has to be version 0.4.2 for the tests to pass, other versions will fail.

with planemo test . the latest pylibtiff==0.6.1and v0.5.1 will pass, but 0.4.2 fails

and the current tool idr_download in Galaxy did not work..