adding autocycler 0.2.1

[erinyoung]

Autocycler is an assembly reconciler that increases the quality of consensus predictions of high-depth genomes.

This PR closes #1185

There are TWO dockerfiles in this PR for two different images. I imagine the '0.2.1' tag would also be the 'latest' one.

One image just has autocycler and its helper scripts (0.2.1). The other has autocycler, the helper scripts, and the tools that these helper scripts use (like flye, raven, and other assemblers). There is a large size difference between these two. I could probably decrease the size in 0.2.1-tutorial by installing each assembler from source, but... I don't feel like spending the additional amount of time to do so.

$ docker image ls
REPOSITORY                      TAG                    IMAGE ID       CREATED          SIZE
autocycler                      app_tutorial                355a8eff848f   2 minutes ago    2.64GB
autocycler                      app                    1c739d54f82e   49 minutes ago   355MB

Autocycler is not on conda, similar to trycycler.

Pull Request (PR) checklist:

• Include a description of what is in this pull request in this message.
• The dockerfile successfully builds to a test target for the user creating the PR. (i.e. docker build --tag samtools:1.15test --target test docker-builds/build-files/samtools/1.15 )
• Directory structure as name of the tool in lower case with special characters removed with a subdirectory of the version number in build-files (i.e. docker-builds/build-files/spades/3.12.0/Dockerfile)
  • (optional) All test files are located in same directory as the Dockerfile (i.e. build-files/shigatyper/2.0.1/test.sh)
• Create a simple container-specific README.md in the same directory as the Dockerfile (i.e. docker-builds/build-files/spades/3.12.0/README.md)
  • If this README is longer than 30 lines, there is an explanation as to why more detail was needed
• Dockerfile includes the recommended LABELS
• Main README.md has been updated to include the tool and/or version of the dockerfile(s) in this PR
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