Clean and refactor amstrax for XAMS v2.0

[cfuselli]

With this PR we provide cleaner working version of amstrax in view of the upcoming XAMS v2.0.

General:

• Adjust imports
• Add arguments to amstraxer for auto processing
• New amstraxer_easy for easier autoprocessing (removed unnecessary options..) -> TODO replace amstraxer
• autoprocessing/autoprocessing.py : add local processing option (for now preferred?)
• autoprocessing/process_run.py : add number of failures handling
• make amstrax straxen independent (to be discussed, for me is just source of problems, straxen changes quickly)
• contexts.py : adjusted some contexts options, TODO: clean all contexts
• rundb interface more structured
• added process_run as script

Processing plugins:

• refactored structure
• make plugins straxen free (at the cost of copy pasting few functions from straxen)
• unified raw records in one type only
• simplified pulse processing
• two new useful plugins for LED calibrations, see the full pulses
• workflow up to peaks tested, need events to tune things

TODOs:

• Clean contexts
• Replace amstraxer
• Auto processing on stomboot
• Test events plugins
• Bump version and make release
• Update docs
• Add and update tests
• ! Add support for different digitiser sampling times
• Add corrections (like to_pe..)

This pull request should go together with updates on the webinterface

[coveralls]

Pull Request Test Coverage Report for Build 6013027622

• 402 of 596 (67.45%) changed or added relevant lines in 28 files are covered.
• 72 unchanged lines in 4 files lost coverage.
• Overall coverage increased (+8.2%) to 53.386%

---

Changes Missing Coverage	Covered Lines	Changed/Added Lines	%
amstrax/plugins/events/events.py	28	29	96.55%
amstrax/plugins/peaks/peak_basics.py	47	48	97.92%
amstrax/auto_processing/amstraxer.py	0	5	0.0%
amstrax/rundb.py	0	5	0.0%
amstrax/common.py	51	58	87.93%
amstrax/plugins/raw_records/daqreader.py	67	77	87.01%
amstrax/auto_processing/auto_processing.py	3	23	13.04%
amstrax/plugins/led_cal/records_led.py	18	40	45.0%
amstrax/plugins/led_cal/led_calibration.py	21	47	44.68%
amstrax/auto_processing/amstraxer_easy.py	11	41	26.83%

Files with Coverage Reduction	New Missed Lines	%
amstrax/rundb.py	1	20.71%
amstrax/auto_processing/auto_processing.py	3	12.5%
amstrax/hitfinder_thresholds.py	9	33.33%
amstrax/auto_processing/amstraxer.py	59	14.42%

Totals
Change from base Build 4382564582:	8.2%
Covered Lines:	678
Relevant Lines:	1270

---

💛 - Coveralls

[cfuselli]

Merging work done in the last months.
Still some todos that would be nice to implement will be left for later.

TODOs:

• Clean contexts
• Replace amstraxer
• Auto processing on stomboot
• Test events plugins
• Bump version and make release
• Update docs
• Add and update tests
• ! Add support for different digitiser sampling times
• Add corrections (like to_pe..)