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  • 10:22, 6 June 2023 H Winkhardt (talk | contribs) deleted page Resource Managers (content before blanking was: "== TORQUE Resource Manager == The '''T'''erascale '''O'''pen-source '''R'''esource and '''QUE'''ue Manager ([http://www.adaptivecomputing.com/products/open-source/torque/ TORQUE]) is a distributed resource manager providi...")
  • 10:22, 6 June 2023 H Winkhardt (talk | contribs) deleted page Text editors (content before blanking was: "Text editors are used to edit files and scripts on bwHPC clusters. Some of them are with GUI and some of them are not. == Without GUI == * vim * nano == With GUI == Note that using GUI application require SSH login wi...")
  • 10:22, 6 June 2023 H Winkhardt (talk | contribs) deleted page Relion (content before blanking was: "{{Softwarepage|bio/relion}} {| width=760px class="wikitable" |- ! Description !! Content |- | module load | bio/relion |- | License | [http://static.fsf.org/nosvn/directory/fdl-1.3-standalone.html GNU Free Documentation...")
  • 10:21, 6 June 2023 H Winkhardt (talk | contribs) deleted page Batch Jobs - quick guide (content before blanking was: "All calculations can be only executed as a '''batch job''' which is a scripted sequence of commands together with required run time, number of CPU cores and required memory size. Batch jobs are to be submitted to the comp...")
  • 10:21, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwForCluster MLS&WISO Development SuperQuickStart (content before blanking was: "'''Either...''' * get an account and login * use the default gcc compiler and openmpi: module load gcc module load openmpi * compile your stuff, e.g.: cd ~/work mpicc ... ./myprog.c * choose the queue: ** devel 2h...")
  • 10:21, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwForCluster MLS&WISO Development Batch Jobs (content before blanking was: "= Introduction = To allow the use of the computational resources by several users, the resources are split spatially (=number of nodes) and temporally in items that are called jobs. Each job can request exclusive usage of...")
  • 10:21, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwForCluster MLS&WISO Development Software Modules (content before blanking was: "= Introduction = Compilation and running of parallel programs often require certain environmental variables to be set, such that programs (PATH), shared libraries (LD_LIBRARY_PATH) and man pages (MANPATH) can be found. A...")
  • 10:21, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwForCluster MLS&WISO Development Contact (content before blanking was: "For assistance regarding access to and usage of the bwForCluster MLS&WISO Development, please send an e-mail to [mailto:bwfor-support@iwr.uni-heidelberg.de bwfordev-support]. [[Category:bwForCluster_MLS&WISO_Development]...")
  • 10:21, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwForCluster MLS&WISO Development Login (content before blanking was: "= Login = After Registration, the bwfordev can be accessed via Secure Shell (SSH). Only SSH is allowed for login. From linux machines, you can log in using the following command: <code> ssh...")
  • 10:21, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwForCluster MLS&WISO Development Filesystems (content before blanking was: "= File Systems = There is a storage systems for $HOME. Additionally, each compute node provides high-speed temporary storage on the node-local solid state disk on /tmp. {| class="wikitable" |- !style="width:25%" | !sty...")
  • 10:21, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwForCluster MLS&WISO Development Acknowledgement (content before blanking was: "When preparing a publication describing work that involved the usage of a bwForCluster, e.g. the bwForCluster MLS&WISO (Development), please ensure that you reference the bwHPC initiative, the bwHPC-C5 project and – if...")
  • 10:21, 6 June 2023 H Winkhardt (talk | contribs) deleted page Trinity (content before blanking was: "not available until now... stay tuned...")
  • 10:21, 6 June 2023 H Winkhardt (talk | contribs) deleted page Performance Reports (content before blanking was: "{| width=600px class="wikitable" |- ! Description !! Content |- | module load | devel/reports/5.0.1 |- | Availability | bwUniCluster | BwForCluster_Chemistry |- | License | Floating or server locked licences...")
  • 10:21, 6 June 2023 H Winkhardt (talk | contribs) deleted page SAS (content before blanking was: "{| width=760px class="wikitable" |- ! Description !! Content |- | module load | math/sas |- | Availability | bwForCluster_MLS&WISO_Production |- | License | Commercial. |- | Citing | n/a |- | Links | [http://www.sas....")
  • 10:21, 6 June 2023 H Winkhardt (talk | contribs) deleted page CummeRbund (R-package) (content before blanking was: "{| width=600px class="wikitable" |- ! Description !! Content |- | module load | bio/r_cummerbund (R-plugin only) |- | License | Artistic-2.0 |- |Citing | Citing infos... |- | Links | [http://bioconductor.org/...")
  • 10:20, 6 June 2023 H Winkhardt (talk | contribs) deleted page RAxML (content before blanking was: "{{Softwarepage|bio/raxml}} {| width=600px class="wikitable" |- ! Description !! Content |- | module load | bio/raxml |- | License | [http://www.gnu.org/copyleft/gpl.html GPLv3] |- |Citing | RAxML | raxmlGUI |- | Li...")
  • 10:20, 6 June 2023 H Winkhardt (talk | contribs) deleted page MrBayes (content before blanking was: "{| width=760px class="wikitable" |- ! Description !! Content |- | module load | bio/mrbayes |- | License | Free Software |- |Citing | n./a. |- | Links | [http://mrbayes.sourceforge.net/index.php MrBayes Homepage] |...")
  • 10:20, 6 June 2023 H Winkhardt (talk | contribs) deleted page Integrative-Genomics-Viewer (content before blanking was: "{{Softwarepage|bio/igv}} {| width=600px class="wikitable" |- ! Description !! Content |- | module load | bio/igv |- | License | [https://github.com/igvteam/igv/blob/master/license.txt MIT License] |- | Citing | <small><...")
  • 10:20, 6 June 2023 H Winkhardt (talk | contribs) deleted page GATK (content before blanking was: "{{Softwarepage|bio/gatk}} {| width=600px class="wikitable" |- ! Description !! Content |- | module load | bio/gatk |- | License | Mixed licensing mode: [https://www.broadinstitute.org/gatk/about/license.html Free for ac...")
  • 10:20, 6 June 2023 H Winkhardt (talk | contribs) deleted page Smalt (content before blanking was: "{| width=600px class="wikitable" |- ! Description !! Content |- | module load | bio/smalt |- | Availability | bwUniCluster |- | License | [http://www.gnu.org/copyleft/gpl.html GPLv3] |- | Citing | <small>SMALT is Cop...")
  • 10:20, 6 June 2023 H Winkhardt (talk | contribs) deleted page FastQ screen (content before blanking was: "{{Softwarepage|bio/fastq_screen}} {| width=600px class="wikitable" |- ! Description !! Content |- | module load | bio/fastq_screen |- | License | [http://www.gnu.org/copyleft/gpl.html GPLV3] |- |Citing | n./a. |- | Link...")
  • 10:20, 6 June 2023 H Winkhardt (talk | contribs) deleted page Burrows Wheeler Aligner (content before blanking was: "{| width=1200px class="wikitable" |- ! Description !! Content |- | module load | bio/bwa (Burrows Wheeler Aligner) |- | License | [http://www.gnu.org/copyleft/gpl.html GPLV3], MIT License |- |Citing | #Citing|Citing in...")
  • 10:20, 6 June 2023 H Winkhardt (talk | contribs) deleted page FastQC (content before blanking was: "{{Softwarepage|bio/fastqc}} {| width=600px class="wikitable" |- ! Description !! Content |- | module load | bio/fastqc |- | License | [http://www.gnu.org/copyleft/gpl.html GPLv3] |- |Citing | n./a. |- | Links | [https:/...")
  • 10:20, 6 June 2023 H Winkhardt (talk | contribs) deleted page FastQT (content before blanking was: "{| width=600px class="wikitable" |- ! Description !! Content |- | module load | bio/fastqc |- | Availability | bwUniCluster |- | License | [http://www.gnu.org/copyleft/gpl.html GPLv3] |- |Citing | n./a. |- | Links |...")
  • 10:19, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwForCluster MLS&WISO Production Acknowledgement (content before blanking was: "When preparing a publication describing work that involved the usage of a bwForCluster, e.g. the bwForCluster MLS&WISO (Production), please ensure that you reference the bwHPC initiative, the bwHPC-S5 project and – if a...")
  • 10:19, 6 June 2023 H Winkhardt (talk | contribs) deleted page MAP (content before blanking was: "{{Softwarepage|devel/ddt}} {| width=600px class="wikitable" |- ! Description !! Content |- | module load | devel/ddt |- | License | Floating or server locked licences for developers and users. | [http://www.allinea....")
  • 10:19, 6 June 2023 H Winkhardt (talk | contribs) deleted page IMa2p (content before blanking was: "{| width=600px class="wikitable" |- ! Description !! Content |- | module load | bio/ima2p |- | Availability | bwUniCluster |- | License | [https://github.com/arunsethuraman/ima2p/blob/master/COPYING GNU GENERAL PUBLIC...")
  • 10:19, 6 June 2023 H Winkhardt (talk | contribs) deleted page Berkeleygw (content before blanking was: "{| width=600px class="wikitable" |- ! Description !! Content |- | module load | chem/berkeleygw |- | Availability | BwForCluster_Chemistry |- | License | BerkeleyGW, Copyright (c) |- | Citing | [http://w...")
  • 10:19, 6 June 2023 H Winkhardt (talk | contribs) deleted page Omnet (content before blanking was: "{{Softwarepage|cae/omnet}} {| width=600px class="wikitable" |- ! Description !! Content |- | module load | cae/omnet |- | License | [https://omnetpp.org/doc/omnetpp/manual/usman.html#sec101 OMNeT++ is free only for acade...")
  • 10:19, 6 June 2023 H Winkhardt (talk | contribs) deleted page Fastsimcoal (content before blanking was: "{| width=700px class="wikitable" |- ! Description !! Content |- | module load | bio/fastsimcoal |- | License | Freely available |- | Citing |<small><small> fastsimcoal2 and fsc22:<br> Excoffier, L., Dupanloup, I., Huerta-...")
  • 10:19, 6 June 2023 H Winkhardt (talk | contribs) deleted page Amber (content before blanking was: "#REDIRECT Software Modules")
  • 10:19, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwForCluster MLS&WISO Production (content before blanking was: "#REDIRECT Category:BwForCluster_MLS&WISO_Production")
  • 10:19, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwForCluster MLS&WISO (content before blanking was: "#REDIRECT Category:BwForCluster_MLS&WISO_Production")
  • 10:19, 6 June 2023 H Winkhardt (talk | contribs) deleted page Structure (content before blanking was: "{{Softwarepage|bio/structure}} {| class="wikitable" |- ! Description !! Content |- | module load | bio/structure |- | License | Free Software |- |Citing |<small><small>The basic algorithm was described by Pritchard, Step...")
  • 10:18, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwForCluster MLS&WISO Production Login (content before blanking was: "= Login = == Prerequisites for login == * You have registered your account at the registration server for MLS&WISO. ** If this is still missing, then please log in to the [https://wiki.bwhpc.de/e/BwForCluster_User_Acces...")
  • 10:18, 6 June 2023 H Winkhardt (talk | contribs) deleted page Swissprot Database (content before blanking was: "{{Softwarepage|dbdata/swissprot}} {| width=600px class="wikitable" |- ! Description !! Content |- | module load | dbdata/swissprot |- | License | [http://www.calculate-linux.org/packages/licenses/swiss-prot Public Domain...")
  • 10:18, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwForCluster MLS&WISO Production Batch Jobs (content before blanking was: "'''October 2020: This page is outdated. bwForCluster MLS&WISO Production migrated to Slurm. ''' = Job Submission = This page describes the details of the queuing system specific to the bwForCluster MLS&WISO (Production)...")
  • 10:18, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwForCluster MLS&WISO Production Filesystems (content before blanking was: "= File Systems = There is one storage system for $HOME and for workspaces providing a large parallel file system based on [https://www.ibm.com/support/knowledgecenter/STXKQY/ibmspectrumscale_welcome.html IBM Spectrum Sca...")
  • 10:18, 6 June 2023 H Winkhardt (talk | contribs) deleted page Fasta (content before blanking was: "{| width=600px class="wikitable" |- ! Description !! Content |- | module load | bio/fasta/36.3.8 |- | License | [http://www.apache.org/licenses/LICENSE-2.0 Apache License] |- | Citing |<small><small>Code in the smith_wate...")
  • 10:18, 6 June 2023 H Winkhardt (talk | contribs) deleted page Contact and Support (bwForCluster MLS&WISO) (content before blanking was: "#REDIRECT BwForCluster MLS&WISO Production Contact")
  • 10:18, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwForCluster MLS&WISO Development Hardware (content before blanking was: "== System Architecture == The development part of bwForCluster MLS&WISO is a high performance supercomputer dedicated to the development of methods for scientific computing in all research fields. It consists of unified...")
  • 10:18, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwForCluster MLS&WISO Production Hardware (content before blanking was: "== System Architecture == The production part of bwForCluster MLS&WISO is a high performance supercomputer dedicated to research in Molecular Life Science, Economics, and Social Sciences. It features different types of c...")
  • 10:18, 6 June 2023 H Winkhardt (talk | contribs) deleted page Bowtie2 (content before blanking was: "{{Softwarepage|bio/bowtie2}} {| width=650px class="wikitable" |- ! Description !! Content |- | module load | bio/bowtie2 |- | License | Artistic License/GPLv3 |- | Citing |<small><small> Langmead B, Salzberg...")
  • 10:17, 6 June 2023 H Winkhardt (talk | contribs) deleted page Highlighting test (content before blanking was: "<syntaxhighlight lang=bash> #!/bin/bash ################################################## ## simple MPI job run template for bwUniCluster ## ################################################## ## ver. : 2015-02-25, Rober...")
  • 10:17, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwForCluster MLS&WISO Production Contact (content before blanking was: "==General Support== For assistance regarding access to and usage of the bwForCluster MLS&WISO Production, please open a ticket via [https://bw-support.scc.kit.edu/ bwSupport Portal]. <!-- ==Mailing Lists== If you would...")
  • 10:17, 6 June 2023 H Winkhardt (talk | contribs) deleted page Hardware and Architecture (bwForCluster MLS&WISO) (content before blanking was: "#REDIRECT BwForCluster_MLS&WISO_Production_Hardware")
  • 10:17, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwHPC BPG Data Management (content before blanking was: "= Local File Systems = In addition to computing capacity, each bwHPC cluster is equipped with a parallel file system. For local data management it is important to differentiate if data is frequently used and persistent o...")
  • 10:17, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwFileStorage RoboMirror (content before blanking was: "RoboMirror's aim is to provide a very simple and user-centered GUI for Robocopy to allow for easy synchronization of two directory trees, e.g., to perform a robust incremental backup across the network (e.g., to bwfilesto...")
  • 10:17, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwFileStorage lftp (content before blanking was: "<H1>Using lftp from UNIX client</H1> '''lftp''' is a command-line file transfer program (FTP client) for UNIX and Unix-like systems. Besides FTP, it also supports HTTP, HTTPS and '''SFTP''' etc. In addition to feature...")
  • 10:17, 6 June 2023 H Winkhardt (talk | contribs) deleted page BwFileStorage Filesystem (content before blanking was: "Some of the characteristics of the file systems are shown in Table. {| style="width:100%; vertical-align:top; background:#f5fffa;border:1px solid #000000;padding:1px" |- style="width:20%;height=20px; text-align:left;padd...")
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