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Debian Med 2019 Sprint

Location, Date

This is an informal co-working and co-learning event, participants are welcome to attend on the days that work for their schedule. There is a possibility to arrive or depart a day earlier or later, ask on the mailing list if this interests you.

Getting there

Use this link to get travel recommendations: https://www.rome2rio.com/map/My-hometown/Tauro-g-12-Vilnius-01114-Lituania

Travel wise you can fly into the VNO with many low cost flights. Travel time from the airport to the venue is 7 minutes by taxi, 20 minutes by city bus (1 EUR, pay on the bus)

https://www.vilnius-airport.lt/s/docs/2018_skrydziu_zemelapis_en.pdf

Lithuania's second city, Kaunas, also has an airport (KUN) and is 1.5 hours away by train or bus. (The KUN to Vilnius bus scheduled is linked to the RyanAir flights: https://www.ollex.lt/en/express/Kaunas-airport/buy-a-ticket# )

https://www.kaunas-airport.lt/images/pdf/2018_skrydziu_zemelapis_en.pdf

Accomodations proposal

Vilnius University apartments offer single rooms for 24-32 EUR). They're located 15mins walk from the venue. Breakfast is not included, but there are plenty of places to eat around.

Payments are to be made at the reception, all sorts of cards should be accepted.

To reserve your room, indicate "requested" in the "booked accom." column below.

Participants

(tentative/final list of participants here before/after the sprint)

No

Name

Email

confirmed

booked accom.

Organisation

Living in

Arrival at

Departure at

1

Michael R. Crusoe

mrc@commonwl.org

Yes

N/A

CWL/VšĮ "Darbo eigos"

LT

2019-03-09T08:00

2019-03-11T21:00

2

Andreas Tille

tille

Yes

?

Debian

DE

?

?

3

Andrius Merkys

andrius.merkys@gmail.com

Yes

N/A

Vilnius University

LT

2019-03-09T08:00

2019-03-11T21:00

4

Olivier Sallou

osallou

No

?

Debian

FR

?

?

5

Steffen Möller

moeller

Yes

requested

Debian

DE

early

6

Sascha Steinbiss

satta

No

requested

Debian

DE

2019-03-08/09?

2019-03-11

Please use ISO 3166 two-letter country codes and YYYY-MM-DDTHH:MM format.

Agenda

Michael R. Crusoe

Ship more CWL descriptions in /usr/share/commonwl/ http://www.commonwl.org/v1.0/CommandLineTool.html#Discovering_CWL_documents_on_a_local_filesystem

For app that use <seqan/arg_parse.h> and that lack a curated CWL description:

  1. Generate a CTD description for each binary using the hidden --write-ctd option combined
  2. Convert that CTD to CWL with https://github.com/WorkflowConversion/CTDConverter

  3. Install that CWL description to /usr/share/commonwl as part of the package

Continue the packaging of popular CWL executors with full CWL v1.0.x support like toil-cwl-runner and Arvados. Assist packaging of Galaxy in anticipation of their CWL support.

Bring CWL workflows to Debian in their own right with automated testing.

Steffen Möller

  • Revisit ?AutoDockTools

  • bcbio workflow and its dependencies + Python 3 ports
  • preparation for booth at upcoming conference(s)

Andrius Merkys

  • Contribute to packaging and bug squashing for Debian Med
  • Keysigning

Reports

Acknowledgements

the sprint has been possible thanks to:


CategorySprint