Update notes_2017_03_28.md

notes/wd/notes_2017_02_28.md

-# Work discussion 14-02-2017
-
-Present: Jonathan Vis (JV), Leon Mei (LM), Jeroen Laros (JL),
-Pieter Neerincx (PN), Peter van 't Hof (PH), Gerben van der Vries (GV).
-
-## GoNL re-analysis
-Sample naming convention:
-
-- We use the exising GoNL IDs that have no connection to biobanks.
-- PhiX in the reference sequence. This was also asked in a VKGL meeting, there
-  was a preference to include it.
-- Phase by transmission still needed, the haplotype caller does not take trio
-  date into account.
-- Trio aware variant calling on one trio to compare to the haplotype caller.
-
-Ansible installation testing is still needed. Especially the EasyBuild part is
-challenging. PN and GV are going to do this.
-
-10T reserved at the LUMC for this analysis.
-
-## eLAN
-Stress test still needed.
-
-- Part of the GoNL project.
-
-## CoManage
-Authorisation workflow:
-
-- Creating a VO succeeded.
-- A lot of options, no good overview.
-- PN suggests a hackathon (Gerben Venekamp, PN, Mark Santcroos) PN will
-  schedule this.
-- Local enrollment, we first let UMCG and LUMC come up with solutions which we
-  will use as a template for other UMCs.
-
-## Ansible and Easybuild integration
-Usable at this moment.
-
-- Nothing discussed about packaging.
-- Ansible role working, needs to be documented.
-- Ansible plugin is in the POC phase.
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notes/wd/notes_2017_03_28.md

+# Work discussion 14-02-2017
+
+Present: Jonathan Vis (JV), Leon Mei (LM), Jeroen Laros (JL),
+Mark Santcroos (MS), Pieter Neerincx (PN), Gerben van der Vries (GV),
+Roan Kanninga (RK).
+
+## GoNL re-analysis
+Refset proposal:
+
+- PN and JL are going to send this to the NCBI.
+- The VKGL will be contacted for feedback.
+
+RK: We should enable base recalibration.
+
+- Can we use multiple recalibration files on the fly?
+- If so, compare to the 'polished BAM' method.
+
+QC:
+
+- BAM statistics.
+- Concordance with both array data and hg19-VCFs.
+
+## eLAN
+Test succeeded.
+
+## CoManage
+PN, MS, GV, Paul van Dijk had a hands-on session.
+
+- Problems with the SQL database.
+- An other meeting in April for an authorisation workflow.
+  - Before this, we need a test LDAP server in Groningen.
+- MS has an LDAP server running, waiting for a firewall setting.
+
+Rens (SURF) wants to test CoManage on the (new) BIOS VM.
+
+## Ansible and Easybuild integration
+Ansible installation testing:
+
+- GV succeeded installing easybuild via ansible on Shark.
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