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6 years, 326 days, 23 hours and 57 minutes - Benoit Charloteaux

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__NOTOC__
 
__NOTOC__
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<center>
 
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'''For further informations, please contact :'''
 
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{| class="wikitable"
 
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|-
 
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!|GIGA||UDI Med
 
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|-
 
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||''GIGA +1, Room 1/11A-B''<br />
 
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[mailto:laurent.fournier@uliege.be ''laurent.fournier@uliege.be'']<br />
 
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''Work: +32 4 366 34 53''<br />
 
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''Mobile: +32 497 87 96 46''
 
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||''CHU +0''<br />
 
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[mailto:udi.med@uliege.be ''udi.med@uliege.be'']<br />
 
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''+32 4 366 99 66''<br />
 
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[http://www.dbi-supp.ulg.ac.be/formulaire/udi_med/ ''Requests form'']
 
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|-
 
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||
 
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* Linux support & management
 
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* MassStorage + grids's support & management
 
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* Taping system (backup)
 
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* Support & installs grid Linux-based
 
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||
 
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* Desk Support & management
 
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* Network (LAN, VPN)
 
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* VPS
 
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* Support & installs office Windows/Mac-based
 
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|}
 
  
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And, of course, you still got the [https://my.uliege.be/portail/index.do '''ULg Intranet'''] for all administrative requests and the [http://www.giga.uliege.be/cms/c_8725/fr/portail-intranet-accueil '''GIGA Intranet'''] providing much more informations.</center>
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<big><center>'''Welcome to the IT-GIGA Wiki'''</center></big>
 +
<br />
 +
<big><center>''The aim of this website is to provide concise information on IT resources available to GIGA members''</center></big> <big><center>''and help them to get started with both PC and GIGA’s high performance computing facilities.''</center></big>
 +
<br /><br />
  
 +
Many GIGA members might just need a small storage space and a running ''standard'' computer : <br />
 +
They got [[GIGA:PC#DoX | '''DoX''']] which is a cloud storage (''synchronized with a defined space on the user's computer''), owned by ULiège and which is backuped every night.<br />
  
 +
Others, like the ones working in genomics or imaging platforms, would require more space and/or processing power for their datas :<br />
 +
[[GIGA:MS | '''Huge storage''']] and [[GIGA:HPC | '''high throughtput computing''']] infrastructures are available.
  
 +
But that's not all :<br />
 +
Are also provided several [[GIGA:TOOLS | '''tools''']] and/or web-platforms, a [[GIGA:BKP | '''backuping system''']] for big datas, as well as [[First_Steps | '''How-to's''']] and ''on-demand'' training sessions.
  
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==What we got right now==
 
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===[[World_Wide_Web|Web]]-based tools===
 
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<center>
 
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{| style="width: 70%;"
 
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| colspan="2" |
 
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|-
 
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|  [http://damona.giga.ulg.ac.be/wiki/ This Wiki - Information board] || colspan="1" | [[Wiki|'''<span style="color:#4169E1">About</span>''']] ||
 
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|-
 
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| [http://damona.giga.ulg.ac.be/openatrium/ OpenAtrium - A Project Manager for Usergroups, tasks and logistics management] || colspan="1" | [[OA|'''<span style="color:#4169E1">About</span>''']] || colspan="1" | [[OA:Use|'''<span style="color:#4F94CD">Howto</span>''']]
 
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|-
 
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| [http://galaxy.giga.ulg.ac.be:8080 Galaxy - A bioinformatics research platform] || colspan="1" | [[Galaxy|'''<span style="color:#4169E1">About</span>''']] || colspan="1" | [[Galaxy:Use|'''<span style="color:#4F94CD">Howto</span>''']]
 
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|-
 
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| [http://cytomine.giga.ulg.ac.be Cytomine - A collaborative imaging analysis platform] || colspan="1" | [[Cytomine|'''<span style="color:#4169E1">About</span>''']] || colspan="1" | [[Cytomine:Use|'''<span style="color:#4F94CD">Howto</span>''']]
 
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|-
 
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| [http://rstudio.giga.ulg.ac.be/ RStudio - A web IDE for R] || colspan="1" | [[RStudio|'''<span style="color:#4169E1">About</span>''']] || colspan="1" | [[RStudio:Use|'''<span style="color:#4F94CD">Howto</span>''']]
 
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|-
 
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| [https://app.giga.ulg.ac.be/git/ GitLab - A versioning platform] || colspan="1" | [[GitLab|'''<span style="color:#4169E1">About</span>''']] || colspan="1" | [[GitLab:Use|'''<span style="color:#4F94CD">Howto</span>''']]
 
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|}
 
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</center>
 
  
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<big><center>Is also provided an [[Policy | '''IT Policy''']] where all those informations are written down formally.</center></big>
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<br /><br />
  
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===[[Grid_computing|Grid]]-based tools===
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=What do i need to know=
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<console>
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<br />Depending on "''who you are''", "''what you do''", "''how you work''", etc. are available several informations.
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u227664@master01:~$ ##i##module avail
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<br /><br />
 +
Those being :
 +
* I am at GIGA ('''Local use of a computer''') :
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: [[GIGA:PC | ''How to use a computer inside GIGA'']]
 +
* I am outside GIGA ('''Secured remote connection''') : 
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: [[GIGA:OUT | ''How to use a computer outside GIGA'']]
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* I need to store non-scientific data, OR i don't handle big datasets, and back it up ('''DoX / Cloud storage''') : 
 +
: [[GIGA:PC#DoX | ''How to handle non-scientific data'']]
 +
* I need to store ''huge'' scientific data ('''Mass Storage''') : 
 +
: [[GIGA:MS | ''How to store scientific data'']]
 +
* I need to backup scientific data ('''Tapes Library''') : 
 +
: [[GIGA:BKP | ''How the backuping system works'']]
 +
* I need to process scientific data ('''Grid computing / High throughput processing''') : 
 +
: [[GIGA:HPC | ''How to process big scientific data'']]
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* I need to share scientific data with people outside ULiège ('''DoX alternative / Mass Storage mount''') : 
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: [[GIGA:DATA_SHARE | ''How to share data with non-ULiège'']]
  
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##b##----------------------------------------------------------------------- /cm/shared/modulefiles ------------------------------------------------------------------------
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<br /><br />
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5.3.1                    bowtie/2.3.3.1            elprep/2.61              gnuplot/5.0.6            lapack/gcc/64/3.5.0      perl/time-piece/1.31      scala/2.12.0
 
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bam-readcount/1          bwa/0.7.15                elprep/3.0                go/1.9                    mothur/1.39.1            picard-tools/1.78        seqff/1
 
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basespace-invaders/1.0.0  bwa/0.7.16a              elprep/3.01              hdf5/1.6.10              nanonet/1                picard-tools/2.7.1        singularity/2.2.1
 
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basespace-python/1.0.0    bwa/0.7.5a                emboss/6.6.0              hdf5_18/1.8.14            ncbi/eutils/2016-11-22    puppet/3.7.5              slurm/14.11.11
 
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bcftools/1.3.1            canu/1.4                  ensembl-tools/86          homer/4.9                netperf/2.6.0            R/3.2.2                  snpeff/4
 
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bcl2fastq/2.17            cellranger/1.3.1          excelcompare/0.6.1        hpl/2.1                  openblas/dynamic/0.2.14  R/3.2.4                  star/2.5.2b
 
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beagle/21jan17            cmgui/7.1                fastqc/0.11.5            htseq/0.6.1p1            openlava/3.0              rdp-classifier/2.6        sun-jre/7
 
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beagle/3.3.2              crispresso/1              fastx_toolkit/0.0.13      htslib/1.3.2              openmpi/gcc/64/1.8.5      rdptools/1                tabix/0.2.6
 
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bedtools/2.17.0          cufflinks/2.2.1          flash/1.2.11              igvtools/2.3.78          pandoc/1.16.0.2          rmats/3.2.5              tophat/2.1.1
 
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blas/gcc/64/3.5.0        cutadapt/1.11            gatk/3.1.1                iozone/3_430              penncnv/1.0.3            sambamba/0.6.6            ucsc/utils/v432
 
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blast/2.5.0+              default-environment      gatk/3.6                  iozone/3_471              perl/5.16.3              samstat/1.5.1            vcfsorter/1
 
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blat/35                  dos2unix/7.1              gdb/7.9                  java/7.0.25              perl/5.24.1              samtools/0.1.19          vcftools/1
 
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bonnie++/1.97.1          EasyBuild                genomicsimla/1.1.3        java/8.0.111              perl/config-simple/4.59  samtools/1.3.1            vep/90
 
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bowtie/1.1.2              ea-utils/27              GNUparallel/20160822      jdk/jdk1.8.0_66          perl/test-simple/1,001014 samtools/1.6              zlib/1.2.8
 
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</console>
 
  
  
 +
----
 +
<br /><br />
 +
<imagemap>
 +
File:Wiki_root.png|frame|center|Click on any part send you to the related article
  
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rect 10 377 145 461 [[GIGA:OUT]]
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rect 74 271 143 355 [[GIGA:PC]]
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rect 242 6 494 146 [[GIGA:HPC]]
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rect 563 25 724 129 [[GIGA:BKP]]
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rect 571 165 723 253 [[GIGA:MS]]
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rect 569 281 721 364 [[GIGA:PC#DoX]]
  
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==Getting started with MediaWiki==
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desc none
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Consult the [//meta.wikimedia.org/wiki/Help:Contents User's Guide] for information on using the wiki software.
+
</imagemap>
−
 
 
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* [//www.mediawiki.org/wiki/Special:MyLanguage/Manual:Configuration_settings Configuration settings list]
 
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* [//www.mediawiki.org/wiki/Special:MyLanguage/Manual:FAQ MediaWiki FAQ]
 

Latest revision as of 13:20, 27 July 2018


Welcome to the IT-GIGA Wiki


The aim of this website is to provide concise information on IT resources available to GIGA members
and help them to get started with both PC and GIGA’s high performance computing facilities.



Many GIGA members might just need a small storage space and a running standard computer :
They got DoX which is a cloud storage (synchronized with a defined space on the user's computer), owned by ULiège and which is backuped every night.

Others, like the ones working in genomics or imaging platforms, would require more space and/or processing power for their datas :
Huge storage and high throughtput computing infrastructures are available.

But that's not all :
Are also provided several tools and/or web-platforms, a backuping system for big datas, as well as How-to's and on-demand training sessions.


Is also provided an IT Policy where all those informations are written down formally.



What do i need to know


Depending on "who you are", "what you do", "how you work", etc. are available several informations.

Those being :

  • I am at GIGA (Local use of a computer) :
How to use a computer inside GIGA
  • I am outside GIGA (Secured remote connection) :
How to use a computer outside GIGA
  • I need to store non-scientific data, OR i don't handle big datasets, and back it up (DoX / Cloud storage) :
How to handle non-scientific data
  • I need to store huge scientific data (Mass Storage) :
How to store scientific data
  • I need to backup scientific data (Tapes Library) :
How the backuping system works
  • I need to process scientific data (Grid computing / High throughput processing) :
How to process big scientific data
  • I need to share scientific data with people outside ULiège (DoX alternative / Mass Storage mount) :
How to share data with non-ULiège






GIGA:OUTGIGA:PCGIGA:HPCGIGA:BKPGIGA:MSGIGA:PC#DoX
Click on any part send you to the related article
Retrieved from "http://web.giga.ulg.ac.be/wiki/index.php?title=Main_Page&oldid=18830"