cromshell
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broadinstitute
CLI for interacting with Cromwell servers
Instead of manually importing the subcomands into the main file, have click import them lazily. While this feature isn't directly supported, there are documentation on providing solutions for it like...
This is a bigger issue than this PR, but we need to come up with a convention for how we report errors. I think that we have to choose something...
Currently, 16 commits in the `master` branch have not been incorporated into `cromshell_2.0`. IMO we should check before making the beta release. @bshifaw @lbergelson @jonn-smith
in order to use cromshell, I need to at some point interactively run cromshell to answer a few questions. The only question that actually needs to be answered is what...
https://docs.google.com/document/d/1c8m9Ks4jgc_11ftC4_NU4XEe7BkY_ghwcy9Oj3eEfzY/edit?usp=sharing When cromshell server is busy, sometimes the workflow takes a while to be registered. cromshell wait will fail 2/3 times. Instead, it should wait even when the jobid is...
When I am working with Cromshell frequently and I have to do a lot of swapping between servers to connect with I very often find myself having to maintain a...
When womtool is in the PATH, the womtool is invoked, forwarding the WDL and input json: https://github.com/broadinstitute/cromshell/blob/c7ea8837c0739c911ceeaa00746461c535adb97a/cromshell#L772 If a dependencies zip has been passed to cromshell, it is not forwarded...
@dalessioluca might have input here as well. I am looking for the ability to programmatically preempt a running job using a `cromshell` command. I do not want to abort the...
Cromshell is currently useless for use against a cromwell server that requires authentication. Adding an ability to use a bearer token, by either passing it in as input specifically or...
