User:Timothee Flutre/Notebook/CR AGAP/2014/01/10: Difference between revisions

Revision as of 01:12, 8 March 2016

Project name

<html><img src="/images/9/94/Report.png" border="0" /></html> Main project page
Next entry<html><img src="/images/5/5c/Resultset_next.png" border="0" /></html>

Bookmarks for INRA, CIRAD, SupAgro, and more

I have been hired by the INRA, in the department "Plant biology and breeding" (BAP in French), but the laboratory in which I am working, AGAP, depends on several research institutes: INRA, CIRAD and SupAgro. The primary goal of such an institutional organization is to build a lab to "encompass a wide range of skills and be a leading platform for applied plant biology and genetics", which is a good endevaour. However, on a daily basis, this is particularly challenging as information is scattered around, and each person needs its own access rights to the tools used by each institute. This web page hence aims at providing a list of links to navigate easily among all sources of information.

Institutions:
- INRA: web site, intranet, directory
  - BAP: web site, intranet
  - centre of Montpellier: web site, intranet, map, directory
- CIRAD: web site, intranet (authentification if outside CIRAD), directory, map
- SupAgro: web site, intranet, map, directory
- AGAP: web site, intranet
  - DAAV: web page
- UMT Géno-Vigne ®: web page
- Agropolis Fondation: web site

Tools:
- SupAgro:
  - webmail: Horde
  - bookings for team "vigne" (cars, rooms, videoproj, etc; Aurelie Pedrola for Ferguson's room), room MISTEA/AGAP, cars
  - mailing lists: Sympa (umr-agap-daav, umr-agap-ge2pop, umr-davem-bioinfo)
  - library
  - VPN client: OpenVPN, Fortinet
  - IT help: EIC
  - databases: phpMyAdmin, phpPgAdmin
  - courses: TicéA
- INRA: many services are available from Ariane (mailing lists, collaborative projects, calendars, visioconference, cloud, wiki, missions, leave days, etc)
  - OpenScience
  - libraries
  - maths-info
  - elearning of the Formation Permanente
  - PEPI IBIS (bioinfo and biostat)
- CIRAD:
  - mailing lists: Sympa (biostatsagap: first log in to CIRAD intranet, then log in to Sympa)
  - personal online space: Espace perso
  - spaces for collaborative projects: Alfresco
  - shared large files: FileX
  - online talks: AmphiTV (possibly live)
  - VPN client: Fortinet
  - streaming of talks via VLC: rtmp://cirad.live-fstreams.cdn02.rambla.be:1935/live-cirad/live-cirad-mediaserver-1
- RENATER:
  - visioconference, notably Rendez-Vous
  - (large) file sender: FileSender

Computing platforms: especially high performance computing resources (HPC, that is computer clusters)
- URGI: web site, get account (need fixed IP or not, then ssh -Y tflutre@saruman.versailles.inra.fr), support (urgi-support@versailles.inra.fr)
- SouthGreen: web site, get account (need VPN, can also be open via the Fortinet client from SupAgro via ./forticlientsslvpn_cli --server vpn-montpellier.cirad.fr:443 --vpnuser timothee.flutre, and then ssh -Y flutre@marmadais.cirad.fr), support, use qlogin -q bigmem.q to get X11 forwarding from compute nodes, gitlab, RStudio
- Migale: web site, get account (then ssh -Y tflutre@migale.jouy.inra.fr), support (help.migale@jouy.inra.fr)
- GenOuest: web site, get account (ssh -Y tflutre@genossh.genouest.org), support (support@genouest.org)

Miscellaneous:
- Code de la Recherche
- ED GAIA (graduate school)
- print posters in Montpellier: Espace Copie, ImaPrint
- portail juridique de l'INRA, Agro Valo Méditerranée
- GNU/Linux distribution by an INRA lab: Debian PAPPSO
- Séminaire de Probabilités et Statistique de Montpellier (mailing list semstat)
- Computational Biology Institute of Montpellier (IBC): mailing list ibc-all
- Labo d’Informatique, de Robotique et de Microélectronique de Montpellier (LIRMM): mailing lists
- Société Française de Bio-Informatique (SFBI): mailing list ("liste bioinfo")
- mailing lists on "evolution": evolmontp, evolfrance, evoldir
- mailing list of the International Grape Genome Program (IGGP)
- mailing list of the CRIBI about the grape genome annotation

@@ Line 12: / Line 12: @@
 ** [https://en.wikipedia.org/wiki/Institut_national_de_la_recherche_agronomique INRA]: [http://www.inra.fr/en web site], [https://intranet.inra.fr/ intranet], [https://intranet.annuaire.inra.fr/accueil.action directory]
 *** BAP: [http://www.bap.inra.fr/en web site], [https://intranet6.inra.fr/bap intranet]
-*** centre of Montpellier: [http://www.montpellier.inra.fr/ web site], [https://intranet.montpellier.inra.fr/ intranet], [http://www.supagro.fr/web/UserFiles/Flash/plan-campus.html map]
+*** centre of Montpellier: [http://www.montpellier.inra.fr/ web site], [https://intranet.montpellier.inra.fr/ intranet], [http://www.supagro.fr/web/UserFiles/Flash/plan-campus.html map], [https://web.supagro.inra.fr/intranet/trombino/ directory]
-** [https://en.wikipedia.org/wiki/Centre_de_coop%C3%A9ration_internationale_en_recherche_agronomique_pour_le_d%C3%A9veloppement CIRAD]: [http://www.cirad.fr/en/home-page web site], [https://intranet.cirad.fr/ intranet], [http://intranet-search.cirad.fr/agents directory], [http://www.cirad.fr/var/cirad/storage/original/application/05038b0c55a79c3d0f2f420aa7025e4d.swf map]
+** [https://en.wikipedia.org/wiki/Centre_de_coop%C3%A9ration_internationale_en_recherche_agronomique_pour_le_d%C3%A9veloppement CIRAD]: [http://www.cirad.fr/en/home-page web site], [https://intranet.cirad.fr/ intranet] ([https://sso.cirad.fr/login authentification] if outside CIRAD), [http://intranet-search.cirad.fr/agents directory], [http://www.cirad.fr/var/cirad/storage/original/application/05038b0c55a79c3d0f2f420aa7025e4d.swf map]
-** [https://fr.wikipedia.org/wiki/Centre_international_d%27%C3%A9tudes_sup%C3%A9rieures_en_sciences_agronomiques SupAgro]: [http://www.supagro.fr/web/en/ web site], [https://www.supagro.fr/web/intranet/ intranet], [http://www.supagro.fr/web/UserFiles/Flash/plan-campus.html map]
+** [https://fr.wikipedia.org/wiki/Centre_international_d%27%C3%A9tudes_sup%C3%A9rieures_en_sciences_agronomiques SupAgro]: [http://www.supagro.fr/web/en/ web site], [https://www.supagro.fr/web/intranet/ intranet], [http://www.supagro.fr/web/UserFiles/Flash/plan-campus.html map], [https://web.supagro.inra.fr/intranet/trombino/ directory]
 ** AGAP: [http://umr-agap.cirad.fr/en web site], [https://intranet-umr-agap.cirad.fr/ intranet]
+*** DAAV: [http://umr-agap.cirad.fr/en/equipes-scientifiques/diversite-adaptation-et-amelioration-de-la-vigne/contexte-et-objectifs web page]
+** UMT Géno-Vigne ®: [http://www.vignevin.com/linstitut/partenaires/unite-mixte-technologique.html web page]
+** [http://en.wikipedia.org/wiki/Agropolis_Fondation Agropolis Fondation]: [http://www.agropolis-fondation.fr/ web site]
 * '''Tools:'''
 ** SupAgro:
-*** email: [https://web.supagro.inra.fr/horde3/imp/login.php Horde]
+*** webmail: [https://webmail.supagro.inra.fr/services/portal/ Horde]
-*** [http://www.montpellier.inra.fr/intranet/intracampus/reservations/viti/ bookings] (rooms, cars, videoproj, etc)
+*** [http://www.montpellier.inra.fr/intranet/intracampus/reservations/viti/ bookings] for team "vigne" (cars, rooms, videoproj, etc; Aurelie Pedrola for Ferguson's room), [https://www1.montpellier.inra.fr/intranet/intracampus/reservations/R_Tableau_reservation.php?type=salle_arbo room MISTEA/AGAP], [https://reservations-vehicules.inra.fr/ cars]
 *** mailing lists: [https://listes.supagro.inra.fr/sympa/ Sympa] (umr-agap-daav, umr-agap-ge2pop, umr-davem-bioinfo)
 *** [http://web.supagro.inra.fr/pmb/opac_css/index.php library]
-*** VPN client: [https://web.supagro.inra.fr/intranet/BAO/Forti/ Fortinet]
+*** VPN client: [https://web.supagro.inra.fr/intranet/uic/index.php?post/2014/09/11/Installation-OpenVPN OpenVPN], [https://web.supagro.inra.fr/intranet/BAO/Forti/ Fortinet]
-** INRA (notably via the [https://intranet6.inra.fr/systemes-information/Offre-de-service DSI])
+*** IT help: [https://web.supagro.inra.fr/intranet/uic/index.php EIC]
-*** mailing lists: [https://listes.inra.fr/sympa Sympa] (such as the one on [https://listes.inra.fr/sympa/info/selection-genomique-inra genomic selection])
+*** databases: [https://web.supagro.inra.fr/phpmyadmin/ phpMyAdmin], [https://web.supagro.inra.fr/intranet/phppgadmin/ phpPgAdmin]
-*** shared online calendars: [https://agenda.inra.fr/ YaZiba]
+*** courses: [https://ticea.supagro.inra.fr/ TicéA]
-*** shared large files: [https://echange-fichiers.inra.fr/ FileX]
+** INRA: many services are available from [https://ariane.inra.fr/ Ariane] (mailing lists, collaborative projects, calendars, visioconference, cloud, wiki, missions, leave days, etc)
-*** files in cloud: [https://intranet6.inra.fr/systemes-information/Offre-de-service/Communication-et-echanges/Partage-securise-de-fichiers-cloud?ticket=ST-387973-tfJxa2hv5PQYceEgObWr-cas YazibaDrive]
+*** [https://intranet6.inra.fr/openscience OpenScience]
-*** spaces for collaborative projects: [https://collaboratif.inra.fr/silverpeas Silverpeas]
-*** spaces for collaborative editing: [https://wiki.inra.fr/ Xwiki]
 *** [https://belinra.inra.fr/ libraries]
 *** [http://www.mathinfo.inra.fr/en maths-info]
 *** [https://elearning.formation-permanente.inra.fr/ ''e''learning] of the Formation Permanente
 *** PEPI [http://www6.inra.fr/pepi/Ingenierie-Bio-Informatique-et-Statistique-pour-les-donnees-haut-debit-IBIS IBIS] (bioinfo and biostat)
-*** missions: [https://intranet.inra.fr/Produits/ulysse/Ulysse/ Ulysse]
-*** congés: [https://rh-production.s2i.inra.fr/hra-space/portal HR Access]
-*** bug tracker: [https://intranet.inra.fr/mantis-INRA/login_page.php Mantis]
 ** CIRAD:
-*** mailing lists: [http://sympa.cirad.fr/sympa/ Sympa] (biostatsagap)
+*** mailing lists: [http://sympa.cirad.fr/sympa/ Sympa] (biostatsagap: first log in to CIRAD intranet, then log in to Sympa)
 *** personal online space: [https://espace-perso.cirad.fr/c/portal/login Espace perso]
 *** spaces for collaborative projects: [https://collaboratif.cirad.fr/share/page/repository Alfresco]
@@ Line 45: / Line 43: @@
 *** online talks: [http://amphi-tv.cirad.fr/ AmphiTV] (possibly live)
 *** VPN client: [ftp://ftp.cirad.fr/cirad/fortinet/ Fortinet]
-** visioconference for academics: [http://evo.renater.fr/ SeeVogh]
+*** streaming of talks via [http://www.videolan.org/vlc/ VLC]: rtmp://cirad.live-fstreams.cdn02.rambla.be:1935/live-cirad/live-cirad-mediaserver-1
+** [https://www.renater.fr/ RENATER]:
+*** [https://www.renater.fr/voix-et-image?lang=fr visioconference], notably [https://rendez-vous.renater.fr/ Rendez-Vous]
+*** (large) file sender: [https://filesender.renater.fr/ FileSender]
 * '''Computing platforms:''' especially high performance computing resources (HPC, that is computer clusters)
 ** URGI: [https://urgi.versailles.inra.fr/ web site], [https://urgi.versailles.inra.fr/Platform/User-support get account] (need fixed IP or [https://acces-versailles.versailles.inra.fr/ not], then ssh -Y tflutre@saruman.versailles.inra.fr), support (urgi-support@versailles.inra.fr)
-** SouthGreen: [http://www.southgreen.fr/ web site], [http://www.southgreen.fr/content/computer-facilities get account] (need [https://vpn-montpellier.cirad.fr/ VPN], can also be open via the Fortinet client from SupAgro via ./forticlientsslvpn_cli --server vpn-montpellier.cirad.fr:443 --vpnuser timothee.flutre, and then ssh -Y flutre@marmadais.cirad.fr), [http://www.southgreen.fr/content/report-problem support]
+** SouthGreen: [http://www.southgreen.fr/ web site], [http://www.southgreen.fr/content/computer-facilities get account] (need [https://vpn-montpellier.cirad.fr/ VPN], can also be open via the Fortinet client from SupAgro via ./forticlientsslvpn_cli --server vpn-montpellier.cirad.fr:443 --vpnuser timothee.flutre, and then ssh -Y flutre@marmadais.cirad.fr), [http://www.southgreen.fr/content/report-problem support], use qlogin -q bigmem.q to get X11 forwarding from compute nodes, [http://montreuillois.cirad.fr/ gitlab], [http://marmadais.cirad.fr/rstudio/ RStudio]
 ** Migale: [http://migale.jouy.inra.fr/ web site], [http://migale.jouy.inra.fr/?q=ressources get account] (then ssh -Y tflutre@migale.jouy.inra.fr), support (help.migale@jouy.inra.fr)
-** GenOuest: [http://www.genouest.org/ web site], [http://genoweb1.irisa.fr/AppliESIB/access/access-en.php get account] (need fixed IP, then ssh -Y tflutre@genocluster2.irisa.fr), support (support@genouest.org)
+** GenOuest: [http://www.genouest.org/ web site], [http://genoweb1.irisa.fr/AppliESIB/access/access-en.php get account] (ssh -Y tflutre@genossh.genouest.org), support (support@genouest.org)
 * '''Miscellaneous:'''
+** [http://www.legifrance.gouv.fr/affichCode.do?cidTexte=LEGITEXT000006071190 Code de la Recherche]
+** [https://gaia.umontpellier.fr/ ED GAIA] (graduate school)
+** print posters in Montpellier: [http://espacecopie.fr/ Espace Copie], [http://www.imaprint.fr/ ImaPrint]
+** [https://www.abcontrats.inra.fr/ portail juridique] de l'INRA, [http://www.supagro.fr/web/pages/?idl=19&page=536 Agro Valo Méditerranée]
 ** GNU/Linux distribution by an INRA lab: [https://2ic.pepi.inra.fr/index.php/poste-de-travail/systeme-dexploitation/520-distribution-debian-customisee-pour-une-utilisation-bureautique Debian PAPPSO]
 ** [http://www.math.univ-montp2.fr/SPIP/sem.php3?a=programme&sem=13 Séminaire de Probabilités et Statistique] de Montpellier (mailing list [http://www.math.univ-montp2.fr/~pudlo/Semstat/_.html semstat])
@@ Line 61: / Line 66: @@
 ** mailing lists on "evolution": [https://listes.univ-montp2.fr/sympa/d_read/evolmontp/divers/evolmontp_mode_demploi.txt evolmontp], [https://listes.univ-montp2.fr/sympa/d_read/evolfrance/divers/evolfrance_mode_demploi.txt evolfrance], [http://evol.mcmaster.ca/evoldir.html evoldir]
 ** mailing list of the International Grape Genome Program ([http://www.vitaceae.org/index.php/Communication_Resources_for_Grape_Researchers IGGP])
+** mailing list of the [http://genomes.cribi.unipd.it/grape/index.php CRIBI] about the grape genome annotation
 <!-- ##### DO NOT edit below this line unless you know what you are doing. ##### -->

User:Timothee Flutre/Notebook/CR AGAP/2014/01/10: Difference between revisions

Revision as of 01:12, 8 March 2016

Bookmarks for INRA, CIRAD, SupAgro, and more

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

research

Tools