Simon Sadedin
Simon Sadedin
## Bug report ### Expected behavior and actual behavior The [documentation](https://www.nextflow.io/docs/latest/process.html#native-execution) says that I can just replace a script command with Groovy language code to do some processing. However, when...
Using the Groovy kernel I make a table like this: ```groovy [ [foo: 1, bar:2], [foo: 10, bar:20] ] * 5 ``` This displays like so:  I then select...
I'm having trouble getting an end to end build to work with the current tree. Everything is OK through to the last command but then this command: ``` jupyter lab...
It would be really useful if we could have vcfanno put a value into a field when it is observed to be missing from an annotation source. I tried to...
We deploy things with linux but most developers are using OSX. It would be very convenient to have a somalier binary compiled for OSX. I tried to do it myself...
Hi, Thanks for publishing pufferfish! I was interested in trying it for genome alignment, but when I tried to index GRCh38 it printed out a lot of warnings as if...
Currently Bpipe relies on frequently polling the queue manager to know that a job exited. This could be avoided if every job writes out an exit code / status file...
Bpipe currently polls each queuing system to determine if a job is still running, has finished successfully or exited with an error code. There has been quite a bit of...
Some executors (eg: Slurm) don't have support for options to allow an arbitrary command line parameter to be added to the job submission. It would be good to support this...
See https://github.com/ssadedin/bpipe/pull/118 for discussion