Debian Med 2018 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.

Getting there

Barcelona is well connected. You will know how to get there. Should there be someone who is kind of new to this "travel alone to foreign countries where you do not know anybody and do not speak the language" thingy, traveling with too much luggage to carry or be there some other need for assistance then we can certainly arrange these individuals to be collected from the airport.

Hotel proposal

A couple of emails back and forth, the hotel to go for is

[Tony Travis has reserved a triple room here if anyone wants to share?]

Including breakfast, a single or double room they give us to 60 Euros, invariant of how many people share that room. Their online booking system has a few single rooms for 45.

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

Cedric Notredame

Yes

N/A

local

-

-

2

Steffen Möller

<moeller>

Yes

Debian

DE

2018-02-08

2018-02-13

3

Andreas Tille

<tille>

Yes

Shared with OS

Debian

DE

2018-02-08

2018-02-15

4

Sascha Steinbiss

<satta>

No

Yes

Debian

DE

2018-02-09

2018-02-12

5

Michael R. Crusoe

mrc commonwl.org

No

CWL/Debian

LT

2018-02-07

TBD

6

Matúš Kalaš

matus.kalas uib.no

Yes

Not yet

Uni Bergen & EDAM

NO

2018-02-07

2018-02-12 or 2018-02-13

7

Tony Travis

tony.travis

Yes

Yes

minke.informatics.co.uk

UK

2018-02-09

2018-02-12

8

Fabian Klötzl

.de

No

Max-Planck

DE

TBD

TBD

9

Fabien Pichon

.com

Yes

FR

08 or 09

TBD

10

Olivier Sallou

<osallou>

Yes

Shared with AT

Debian

FR

2018-02-07

2018-02-12

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

Agenda

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, Arvados, and Rabix Bunny.

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

Personal agendas

Tony Travis

Steffen Möller

Reports

Personal Reports

Tony Travis

  1. Update on Bio-Linux 8.0.8 point release
  2. Progress towards Bio-Linux 9

Acknowledgements

the sprint has been possible thanks to:


CategorySprint