Initial review and cleanup

[joshmoore]

https://anaconda.org/ome/bftools created with 6.3.1 for the community meeting.

• review openjdk choice
• activate travis or GitHub actions
• unify travis files via imports (seealso: omero-py)
• document use (likely via an example environment.yml)
• add to release steps (or automate, e.g. by chaining repositories with event dispatch

All the above apply to the bioformats2raw and raw2ometiff packages.

cc: @sbesson @manics @dgault @jburel @melissalinkert

[joshmoore]

Simple usage:

conda create -n bftools -c ome bftools

[joshmoore]

Note: for openjdk builds on OS X, one needs to use conda-forge:

conda build -c conda-forge .

[joshmoore]

Environment file for testing:

channels:
  - ome
  - conda-forge
  - defaults
dependencies:
  - openjdk=11
  - bftools
  - bioformats2raw
  - raw2ometiff

[manics]

https://github.com/glencoesoftware/bioformats2raw/releases/tag/v0.2.2 was just released, does this mean you can remove conda-forge since the default version of openjdk should work?

Also this repo doesn't build for me on OS X:

$ git log -1
commit 00cd6449a79bff688cdf1b503bcd0138832c443e (HEAD -> master, origin/master, origin/HEAD)
Author: jmoore <[email protected]>
Date:   Wed May 20 08:29:23 2020 +0200

    Fix package name

$ conda build -c conda-forge .
No numpy version specified in conda_build_config.yaml.  Falling back to default numpy value of 1.11
WARNING:conda_build.metadata:No numpy version specified in conda_build_config.yaml.  Falling back to default numpy value of 1.11
Adding in variants from internal_defaults
INFO:conda_build.variants:Adding in variants from internal_defaults
Couldn't extract raw recipe text for bftools output

$ conda build .
No numpy version specified in conda_build_config.yaml.  Falling back to default numpy value of 1.11
WARNING:conda_build.metadata:No numpy version specified in conda_build_config.yaml.  Falling back to default numpy value of 1.11
Adding in variants from internal_defaults
INFO:conda_build.variants:Adding in variants from internal_defaults
Couldn't extract raw recipe text for bftools output

[joshmoore]

does this mean you can remove conda-forge

Yup, just testing that now.

Couldn't extract raw recipe text for bftools output

I don't know what to suggest there. Perhaps different versions of conda?

$ conda --version
conda 4.8.3
$ conda build --version
conda-build 3.7.1

[manics]

$ conda --version
conda 4.7.11

$ conda build --version
conda-build 3.17.8

[joshmoore]

@manics : conda/conda-build#3267 (comment) seems to be the issue. Moving about: to the bottom.

[jburel]

#6
Follow up points from the PR

Two possible follow-up points:

* doesn't look like this is going to be overly generalizable into a template for the likes of conda-bioformats2raw/raw2ometiff
* at the same time, I image a move to conda-forge would also be useful in order to have the automatic updates when upstream changes.