Toolshed dependency issue

[Tristan Croll]

My ISOLDE plugin is dependent upon my Clipper plugin. In the ISOLDE setup.py.in I have:

    install_requires=[
        "ChimeraX-Core >= 0.1",
        "ChimeraX-Clipper >= 0.1.0",
        # TODO: Should list numpy, OpenMM, simtk, etc.
    ],

... which works fine when I install locally using 'make app-install'. But when I attempt to upload ISOLDE to the Toolshed (after uploading the latest Clipper build without any apparent errors), I get:

The file you submitted has a problem app dependencies: dependency on "ChimeraX-Clipper": no such app exists.

I suspect there's a naming mismatch here - the Toolshed seems to enforce an underscore rather than a dash in the name. For now I've commented out the ChimeraX-Clipper line in ISOLDE's setup.py.in, since it's critical that I have the new version up for the weekend (I fly off to Erice early tomorrow morning and give a demo on Sunday, and want people to be able to download it for themselves). Would be good to get some clarification on this, though.

[tic20@…]

Also, while updating the Toolshed via the interface in ChimeraX, I got 
the following messages in the log:

'webkitIDBIndex' is deprecated. Please use 'IDBIndex' instead.
'KeyboardEvent.keyIdentifier' is deprecated and will be removed in M54, 
around October 2016. See 
https://www.chromestatus.com/features/5316065118650368 for more details.

On 2017-06-01 14:33, ChimeraX wrote:

[Tristan Croll]

This is still broken for me, but in a slightly different way. If I add the line:

<Dependency name="ChimeraX-Clipper" version=">=0.1"/>

... to the ISOLDE bundle.xml, then when trying to submit the bundle to the Toolshed I get:

The file you submitted has a problem app dependencies: dependency on "ChimeraX_Clipper" with version "0.1": no such release exists.

Note the underscore rather than the minus sign in the name. If I install the Clipper plugin from the toolshed, then its METADATA file reads:

Metadata-Version: 2.0
Name: ChimeraX-Clipper
Version: 0.1.4
Summary: Interface to Kevin Cowtan's Clipper libraries
Home-page: UNKNOWN
Author: Tristan Croll
Author-email: tic20@cam.ac.uk
License: UNKNOWN
Platform: UNKNOWN
Classifier: Environment :: MacOS X :: Aqua
Classifier: Environment :: Win32 (MS Windows)
Classifier: Environment :: X11 Applications
Classifier: Framework :: ChimeraX
Classifier: Intended Audience :: Science/Research
Classifier: License :: LGPL
Classifier: Operating System :: MacOS :: MacOS X
Classifier: Operating System :: Microsoft :: Windows :: Windows 10
Classifier: Operating System :: POSIX :: Linux
Classifier: Programming Language :: Python :: 3
Classifier: Topic :: Scientific/Engineering :: Visualization
Classifier: Topic :: Scientific/Engineering :: Chemistry
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Classifier: Development Status :: 2 - Pre-Alpha
Classifier: ChimeraX :: Bundle :: General :: 1,1 :: chimerax.clipper :: :: 
Requires-Python: >= 3.5
Requires-Dist: ChimeraX-Core (>=0.1)

[Conrad Huang]

Hi, Tristan.

Sorry about the late response. Working on mysterious Linux daily build failure.

Can you please send me the two wheels for Clipper and ISOLDE? I'll try to reproduce the problem on our test site. Thanks.

Conrad

[Conrad Huang]

Fixed in 79500db. The toolshed code was expecting an exact match for the bundle version in the dependency, even when ">=" is present. Code is now updated to handle ">=" properly. In fact, only ">=" is supported right now.