diff options
author | rautenberg <rautenberg@in-silico.ch> | 2017-01-23 20:13:25 +0100 |
---|---|---|
committer | rautenberg <rautenberg@in-silico.ch> | 2017-01-23 20:13:25 +0100 |
commit | b688c0694f36d78c846c54bc0281dbf2a5eaf198 (patch) | |
tree | b2ade95676b5434f0c87d79bde4b9fcf334f490a | |
parent | e233750914d5ba4630188c14f4617b457a59b506 (diff) |
more rest poster, collecting links for services
-rw-r--r-- | beamercolorthemeIST.sty | 5 | ||||
-rw-r--r-- | beamerthemeIST.sty | 2 | ||||
-rw-r--r-- | markdown_blocks/integration_links.md | 6 | ||||
-rw-r--r-- | markdown_blocks/integration_summary.md | 2 | ||||
-rw-r--r-- | markdown_blocks/rest_examples.md | 4 | ||||
-rw-r--r-- | markdown_blocks/rest_integration.md | 2 | ||||
-rw-r--r-- | markdown_blocks/rest_qmrf.md | 2 | ||||
-rw-r--r-- | markdown_blocks/services_aa.md | 2 | ||||
-rw-r--r-- | markdown_blocks/services_infrastructure.md | 11 | ||||
-rw-r--r-- | markdown_blocks/services_lazar-rest.md | 15 | ||||
-rw-r--r-- | markdown_blocks/services_lazar.md | 8 | ||||
-rw-r--r-- | markdown_blocks/services_nano-lazar.md | 12 | ||||
-rw-r--r-- | markdown_blocks/services_ontoviewer.md | 2 | ||||
-rw-r--r-- | markdown_blocks/services_qsar-report.md | 14 | ||||
-rw-r--r-- | markdown_blocks/services_sparql.md | 0 | ||||
-rw-r--r-- | nmsa-ist-integration.tex | 10 | ||||
-rw-r--r-- | nmsa-ist-services.tex | 51 |
17 files changed, 106 insertions, 42 deletions
diff --git a/beamercolorthemeIST.sty b/beamercolorthemeIST.sty index 7a039f6..fac5443 100644 --- a/beamercolorthemeIST.sty +++ b/beamercolorthemeIST.sty @@ -49,9 +49,10 @@ \lstloadlanguages{Ruby} \lstloadlanguages{Bash} \lstset{% - basicstyle=\ttfamily\color{black}, + language=Bash, + basicstyle=\footnotesize\ttfamily\color{black}, commentstyle = \ttfamily\color{darkgrey}, - keywordstyle=\ttfamily\color{blue}, + keywordstyle=\ttfamily\color{black}, stringstyle=\color{red}, backgroundcolor=\color{lightgrey}} diff --git a/beamerthemeIST.sty b/beamerthemeIST.sty index 72563d1..58b009a 100644 --- a/beamerthemeIST.sty +++ b/beamerthemeIST.sty @@ -22,7 +22,7 @@ \lstset{breakatwhitespace, basicstyle=\small\ttfamily, - keywordstyle=\footnotesize\color{blue}\ttfamily + keywordstyle=\footnotesize\color{black}\ttfamily columns=fullflexible, keepspaces, breaklines, diff --git a/markdown_blocks/integration_links.md b/markdown_blocks/integration_links.md index 7de44f7..1882463 100644 --- a/markdown_blocks/integration_links.md +++ b/markdown_blocks/integration_links.md @@ -1,10 +1,10 @@ -* eNM Data Warehouse <https://data.enanomapper.net> +* eNM data warehouse <https://data.enanomapper.net> -* eNM Ontologies <https://github.com/enanomapper/ontologies> +* eNM ontologies <https://github.com/enanomapper/ontologies> * nano-lazar GUI <http://nano-lazar.in-silico.ch> -* eNM Ontology Viewer <https://query.enanomapper.net/enm-viewer> +* eNM ontology viewer <https://query.enanomapper.net/enm-viewer> * nano-lazar REST interface <https://enm.enanomapper.org> diff --git a/markdown_blocks/integration_summary.md b/markdown_blocks/integration_summary.md index c62f645..871516a 100644 --- a/markdown_blocks/integration_summary.md +++ b/markdown_blocks/integration_summary.md @@ -1,6 +1,6 @@ During the eNanoMapper project in silico toxicologies (IST) public services were adapted to the specification of the eNanoMapper API and new nanoparticle -specific developments were implemented. This poster will depict the +specific developments were implemented. This poster depict the interaction of IST services with eNanoMapper resources of other partners which covers use cases like data download/mirroring, augmentation of GUIs with ontology queries and nanoparticle descriptor calculation. diff --git a/markdown_blocks/rest_examples.md b/markdown_blocks/rest_examples.md index ee9f615..7bd49d6 100644 --- a/markdown_blocks/rest_examples.md +++ b/markdown_blocks/rest_examples.md @@ -4,11 +4,11 @@ Get an URI list for all models: ``` Retrieve an JSON representation of a model: -```Bash +```bash curl -X GET -H 'Accept: application/json' -H 'accept: application/json' 'https://enm.in-silico.ch/model/<MODELID>' ``` Predict a nano-particle: ```Bash - curl -X POST -H 'Content-Type: application/x-www-form-urlencoded' -H 'Accept:text/html' -d 'identifier= \ https://enm.in-silico.ch/nanoparticle/<NANOPARTICLEID>' 'https://enm.in-silico.ch/model/<MODELID>' + curl -X POST -H 'Content-Type: application/x-www-form-urlencoded' -H 'Accept:text/html' -d 'identifier= https://enm.in-silico.ch/nanoparticle/<NANOPARTICLEID>' 'https://enm.in-silico.ch/model/<MODELID>' ```
\ No newline at end of file diff --git a/markdown_blocks/rest_integration.md b/markdown_blocks/rest_integration.md index e0cb402..01a891c 100644 --- a/markdown_blocks/rest_integration.md +++ b/markdown_blocks/rest_integration.md @@ -6,4 +6,4 @@ for other webservices and web applications and for users who prefer the command line over graphical user interfaces. -![nano-lazar service integration](./images/rest_integration.pdf " nano-lazar service integration")
\ No newline at end of file +![nano-lazar service integration](./images/rest_integration.pdf "nano-lazar service integration"){width=1400px}
\ No newline at end of file diff --git a/markdown_blocks/rest_qmrf.md b/markdown_blocks/rest_qmrf.md index aa65b6b..6a3997b 100644 --- a/markdown_blocks/rest_qmrf.md +++ b/markdown_blocks/rest_qmrf.md @@ -1,4 +1,4 @@ -lazar-rest supports QMRF reporting. The integrated QSAR-report library +lazar-rest supports (Q)SAR Model Reporting Format (QMRF). The integrated QSAR-report library\cite{rautenberg_micha_2016_179038} generates QMRF reports in XML format with basic model information (e.g. validation results according to OECD guidelines). The QMRF report library is independent of other IST libraries (e.g. lazar, diff --git a/markdown_blocks/services_aa.md b/markdown_blocks/services_aa.md new file mode 100644 index 0000000..9205888 --- /dev/null +++ b/markdown_blocks/services_aa.md @@ -0,0 +1,2 @@ +* Single sign-on authorization & authentication service + <https://openam.in-silico.ch/openam/>
\ No newline at end of file diff --git a/markdown_blocks/services_infrastructure.md b/markdown_blocks/services_infrastructure.md new file mode 100644 index 0000000..ecdaff4 --- /dev/null +++ b/markdown_blocks/services_infrastructure.md @@ -0,0 +1,11 @@ +* Bugzilla Issue tracker + <https://bugzilla.enanomapper.net/> + +* Mailman mailing list for partner, developers and ontologies + <http://lists.enanomapper.net/> + +* + <> + +* + <>
\ No newline at end of file diff --git a/markdown_blocks/services_lazar-rest.md b/markdown_blocks/services_lazar-rest.md new file mode 100644 index 0000000..607f29b --- /dev/null +++ b/markdown_blocks/services_lazar-rest.md @@ -0,0 +1,15 @@ +* Nano-lazar REST API GUI. Swagger UI based documentation for API visualization and interaction. + \ + <https://enm.in-silico.ch> + +* Nano-lazar Swagger API definition file + <https://enm.in-silico.ch/api/api.json> + +* Nano-lazar REST API services source code repository + <https://github.com/opentox/lazar-rest> + +* Nano-lazar REST API services Rubydocs gem library documentation + <http://www.rubydoc.info/gems/lazar-rest> + +* Nano-lazar REST API issue tracker + <https://github.com/opentox/lazar-rest/issues>
\ No newline at end of file diff --git a/markdown_blocks/services_lazar.md b/markdown_blocks/services_lazar.md new file mode 100644 index 0000000..d1527c8 --- /dev/null +++ b/markdown_blocks/services_lazar.md @@ -0,0 +1,8 @@ +* Lazar (source code) + <https://github.com/opentox/lazar> + +* Lazar issue tracker + <https://github.com/opentox/lazar/issues> + +* Lazar Rubydocs gem library documentation + <http://www.rubydoc.info/gems/lazar>
\ No newline at end of file diff --git a/markdown_blocks/services_nano-lazar.md b/markdown_blocks/services_nano-lazar.md new file mode 100644 index 0000000..232be6a --- /dev/null +++ b/markdown_blocks/services_nano-lazar.md @@ -0,0 +1,12 @@ +* Nano-lazar for toxicity predictions - graphical user interface. + \ + <https://nano-lazar.in-silico.ch> + +* Nano-lazar source code repository + <https://github.com/eNanoMapper/nano-lazar> + +* Nano-lazar Rubydocs gem library documentation + <http://www.rubydoc.info/gems/nano-lazar> + +* Nano-lazar REST API issue tracker + <https://github.com/eNanoMapper/nano-lazar/issues>
\ No newline at end of file diff --git a/markdown_blocks/services_ontoviewer.md b/markdown_blocks/services_ontoviewer.md new file mode 100644 index 0000000..ab0b0c1 --- /dev/null +++ b/markdown_blocks/services_ontoviewer.md @@ -0,0 +1,2 @@ +* eNM ontology viewer + <https://purl.enanomapper.org/>
\ No newline at end of file diff --git a/markdown_blocks/services_qsar-report.md b/markdown_blocks/services_qsar-report.md new file mode 100644 index 0000000..e3a6355 --- /dev/null +++ b/markdown_blocks/services_qsar-report.md @@ -0,0 +1,14 @@ +* QSAR report - Ruby gem library + <https://rubygems.org/gems/qsar-report/> + +* QSAR report - Rubydoc documentation + <http://www.rubydoc.info/gems/qsar-report> + +* QSAR report - Ruby gem library source code + <https://github.com/opentox/qsar-report> + +* QSAR report - Ruby gem library issue tracker + <https://github.com/opentox/qsar-report/issues> + +* QSAR report - Tutorial + <http://opentox.github.io/usage/2016/10/05/qmrf-and-qprf-reporting-library-gem>
\ No newline at end of file diff --git a/markdown_blocks/services_sparql.md b/markdown_blocks/services_sparql.md new file mode 100644 index 0000000..e69de29 --- /dev/null +++ b/markdown_blocks/services_sparql.md diff --git a/nmsa-ist-integration.tex b/nmsa-ist-integration.tex index b1b3a13..c472e36 100644 --- a/nmsa-ist-integration.tex +++ b/nmsa-ist-integration.tex @@ -16,20 +16,14 @@ \begin{frame}{} - \begin{textblock}{80}(1,12) - % \begin{block}{} - \input{./markdown_blocks/company} - % \end{block} - \end{textblock} - - \begin{textblock}{40.5}(1,16) + \begin{textblock}{40.5}(1,11) \begin{block}{Abstract} \input{./markdown_blocks/integration_summary} \end{block} \end{textblock} - \begin{textblock}{40.5}(42.6,16) + \begin{textblock}{40.5}(42.6,11) \begin{block}{Text} \input{./markdown_blocks/integration_text} diff --git a/nmsa-ist-services.tex b/nmsa-ist-services.tex index 7a315c4..d7406a5 100644 --- a/nmsa-ist-services.tex +++ b/nmsa-ist-services.tex @@ -1,6 +1,6 @@ \documentclass[final]{beamer} \usetheme{IST} -\usepackage[orientation=portrait,size=a0,scale=1.4,debug]{beamerposter} % poster size +\usepackage[orientation=portrait,size=a0,scale=1.3,debug]{beamerposter} % poster size \usepackage[absolute,overlay]{textpos} \usepackage[utf8]{inputenc} @@ -16,44 +16,49 @@ \begin{frame}{} - \begin{textblock}{80}(1,10) - % \begin{block}{} - \input{./markdown_blocks/company} - % \end{block} - \end{textblock} - - \begin{textblock}{40.5}(1,14) + \begin{textblock}{40.5}(1,8.6) \begin{block}{Abstract} \input{./markdown_blocks/services_summary} \end{block} - \begin{block}{Screenshot} - \input{./markdown_blocks/screenshot} + \begin{block}{lazar} + \input{./markdown_blocks/services_lazar} + \end{block} + + \begin{block}{nano-lazar} + \input{./markdown_blocks/services_nano-lazar} + \end{block} + + \begin{block}{lazar-rest} + \input{./markdown_blocks/services_lazar-rest} \end{block} - \begin{block}{Markdown tables} - \input{./markdown_blocks/table} + \begin{block}{eNM ontoviewer} + \input{./markdown_blocks/services_ontoviewer} \end{block} + \begin{block}{SPARQL endpoint to eNM ontology and data} + \input{./markdown_blocks/services_sparql} + \end{block} + + \end{textblock} - \begin{textblock}{40.5}(42.6,14) + \begin{textblock}{40.5}(42.6,8.6) - \begin{block}{Maths example} - \input{./markdown_blocks/maths} + \begin{block}{Authorization \& Authentication} + \input{./markdown_blocks/services_aa} \end{block} - \begin{alertblock}{Highlighted Box} - \input{./markdown_blocks/exampletext} - \end{alertblock} + \begin{block}{QSAR-reporting} + \input{./markdown_blocks/services_qsar-report} + \end{block} - \begin{block}{Code} - \input{./markdown_blocks/code} + \begin{block}{eNanoMapper infrastructure} + \input{./markdown_blocks/services_infrastructure} \end{block} - \begin{exampleblock}{Links} - \input{./markdown_blocks/services_links} - \end{exampleblock} + \begin{block}{References} \small\bibliography{references} |