Checking indices and getting project reports

Adds:

• Checking indices using arteria-siswrap to the workflow
• Adds a new cron-style job which picks up project status from charon and posts it to the project coordination slack channel

Start aeacus-* jobs on irma and sync reports

This release brings two major features:

• Starting the aeacus-* jobs from Sisyphus on irma
• Synchronizing reports from irma and loading them into the projmandatabase

This brings us up to speed with the entire old Sisyphus-based process on irma.

Workflow compatible with StackStorm 1.4

The arteria-packs workflow has now been update to be compatible with StackStorm version 1.4. Please note that this breaks compatibility with previous StackStorm versions.

Synchronize to irma and use /pickup

The ngi_uu_workflow will now use the /pickup endpoint on the runfolder service - which should make it less of a problem if multiple sensors are active at the same time (due to a bug in a old version of st2). It also supports synchronization of runfolders to irma.

Longer turn-around times in runfolder sensor

Merge pull request #29 from johandahlberg/longer_sensors_time

Increase sensor poll time to 5 min

Increased timeouts

Moving from 10 h to 24 timeouts - since quick reports aren't really all that quick... 😉

Support ignoring QC results

The workflow now supports skipping the results of the sisyphus QC. Note that QC data will still be generated.

Synchronization to Nestor

This release features:

• Upload to nestor
• Auto-starting of the ngi_pipeline
• Minor bug-fixes and enhancements

v1.2.3

Fixed ssh+rsync bug

v1.2.2

Longer default polling timeouts - since on large runfolders, e.g. HiseqX the steps can take more than an hour to complete.