Release notes 2017 02

Release 2017-02 (beta) is the first public release of the PhenoMeNal services. It is the output of 1.5 years of the work conducted in the H2020 project PhenoMeNal which stands for Phenome and Metabolome aNalysis. Although properly tested and monitored using our continuous integration pipeline it should be used with caution.

Services

Service	Container	Tag	Maintainer	Affiliation	Docs
Galaxy	container-galaxy-k8s-runtime	v16.07-pheno_cv0.1	P. Moreno, L. Pireddu, P. Roger Mele	EMBL-EBI, CRS4, CEA
Jupyter	container-jupyter	v387f29b6ca83_cv0.4	P. Moreno, M. Capuccini	EMBL-EBI, Uppsala University
Luigi	container-luigi	v2.6.0_cv0.1	Marco Capuccini	Uppsala University

Container Tools

Tool	Container	Tag	Maintainer	Affiliation	Docs
batman	container-batman	v1.2.1.0.7_cv1.0	P. Moreno, J. Gao	EMBL-EBI, Imperial College London
ms-vfetc	container-ms-vfetc	v0.4_cv1.3	Michael van Vliet	Leiden University	docs
iso2flux	container-iso2flux	v0.2_cv1.0	Pablo Moreno	EMBL-EBI
ramid	container-ramid	v1.0_cv0.1	Pablo Moreno	EMBL-EBI
midcor	container-midcor	v1.0_cv0.2	Pablo Moreno	EMBL-EBI
mtbls-dwnloader	container-scp-aspera	v3.5.4.102989-linux-64_cv0.1	Pablo Moreno	EMBL-EBI
nmrml2isa	container-nmrml2isa	v0.3.0_cv0.1	P. Moreno, T. Lawson	EMBL-EBI, U. of Birmingham
mzml2isa	container-mzml2isa	v0.4.28_cv0.2	P. Moreno, K. Peters	EMBL-EBI, IPB Halle
metfrag-cli	container-metfrag-cli	v2.4.2_cv0.2	Kristian Peters	IPB Halle
w4m - MetaboLights Downloader	container-mtbls-dwnld	v1.2.0_cv1.1	Pierrick Roger Mele	CEA
w4m - univariate	container-univariate	v2.2.3_cv1.2	Pierrick Roger Mele	CEA
w4m - multivariate	container-multivariate	v2.3.10_cv1.1	Pierrick Roger Mele	CEA
w4m - biosigner	container-biosigner	v2.2.7_cv1.1	Pierrick Roger Mele	CEA
w4m - LC/MS matching	container-lcmsmatching	v3.1.6_cv1.3	Pierrick Roger Mele	CEA
metabolite ID converter	container-MetaboliteIDConverter	v0.5.1_cv1.0	Benjamin Merlet	INRA
NMRMLConv	container-nmrmlconv	v1.1b_cv0.1	Kristian Peters	IPB
metfrag-cli	container-metfrag	v2.4.2_cv0.2	C. Ruttkies, K. Peters	IPB Halle
xcms	container-xcms	v1.50.1_cv0.4	K. Peters, P. Moreno	IPB Halle, EMBL-EBI
MetaboLights ASCP	container-scp-aspera	v3.5.4.102989-linux-64_cv0.1	Pablo Moreno	EMBL-EBI
metabomatching	container-metabomatching	v0.1.0_cv0.3	Rico Rueedi	Unil

Note: maintainers are for containers, not necessarily tool authors.

Workflows

Workflow	PI	Maintainer	Affiliation	Docs
Sacurine workflow	Etienne Thévenot	Pierrick Roger-Mele	CEA	docs
C13 Stationary Fluxomics	Prof. Marta Cascante	Pedro de Atauri, Pablo Moreno	Universitat de Barcelona, EMBL-EBI

Deployment systems

Name	Version	Use case	Maintainer	Affiliation
KubeNow		Manual deployment on OpenStack, AWS, GCE	Marco Capuccini, Anders Larsson	Uppsala University
EBI Portal		Automates deployment of KubeNow on cloud providers	Jose Dianes, Amelie Cornelis, Dario Vianello, Gianni Dalla Torre	EMBL-EBI
PhenoMeNal VRE Gateway		Automated deployment of KubeNow on cloud providers	Sijin He, Pablo Moreno, Kenneth Haug	EMBL-EBI

Supported cloud providers

Provider	Docs
Google Cloud Platform	portal/direct deployment