Main public logs

Combined display of all available logs of HPCwiki. You can narrow down the view by selecting a log type, the username (case-sensitive), or the affected page (also case-sensitive).

• 13:05, 29 May 2026 Haars0011 talk contribs deleted page Assembly & Annotation (content was: "=== Protocol with typical commands used for de novo assembly and annotation === ''Author:'' Martijn Derks ''All script referred to in this protocol can be found here:'' /home/WUR/derks047/BifDev/derks047 * Software * Preprocessing * Assembly * Assembly validation * Annotation * Submission * Visualization === Software === List of tools described in this protocol [http:...", and the only contributor was "Derks047" (talk))
• 13:05, 29 May 2026 Haars0011 talk contribs deleted page Assemble mitochondrial genomes from short read data (content was: "A simple procedure for assembling mitochondrial genomes based on whole-genome re-sequencing data. The first step is to extract reads from the sequence library based on a closely related entirely assembled genome (e.g., for pig, the MT genome as present in the genome build, but could also be of a related species). The genome is then assembled using SOAPdenovo. * a reference genome of a closely related population or species. * a bowtie2 index (make with bowtie2_build) * a blasta...")
• 13:05, 29 May 2026 Haars0011 talk contribs deleted page Animal Breeding and Genetics (content was: "The [http://www.abg.wur.nl/UK/ Animal Breeding and Genetics] chair group provides education and generates knowledge on the role and sustainable use of genetic variation in animals. The Animal Breeding and Genetics group contributes to our quality of life by providing knowledge to support the adequate supply of safe and healthy food of animal origin, and to enhance the healt...", and the only contributor was "Hjmegens" (talk))
• 13:05, 29 May 2026 Haars0011 talk contribs deleted page Allpathslg 51910 (content was: " '''[http://www.broadinstitute.org/software/allpaths-lg/blog/ ALLPATHS-LG]''' is a popular genome assembler. == Module file == The module file can be found in this location: /cm/shared/modulefiles/SHARED/ <pre> #%Module1.0####################################################################### ## maker ALLPATHS-LG (51910 modulefile ## proc ModulesHelp { } { puts stderr "\tAdds ALLPATHS-LG (51910) to your environment" } module-whatis "Adds ALLPATHS-LG (51910) to...")
• 13:04, 29 May 2026 Haars0011 talk contribs deleted page Allpathslg 48961 (content was: " '''[http://www.broadinstitute.org/software/allpaths-lg/blog/ ALLPATHS-LG]''' is a popular genome assembler. == Module file == The module file can be found in this location: /cm/shared/modulefiles/SHARED/ <pre> #%Module1.0####################################################################### ## maker ALLPATHS-LG (48961 modulefile ## proc ModulesHelp { } { puts stderr "\tAdds ALLPATHS-LG (48961) to your environment" } module-whatis "Adds ALLPATHS-LG (48961) to...")
• 13:03, 29 May 2026 Haars0011 talk contribs deleted page About ABGC (content was: "The Animal Breeding and Genomics Centre is a merger of the Animal Breeding & Genetics chair group, of the [http://www.wageningenuniversity.nl/UK/about/organisation/Chair%20groups/animal/ Animal Sciences Group], Wageningen University, and the Genetics and Genomics cluster of the WUR [http://www.livestockresearch.wur.nl/UK/ Livestock Research] Centre. The ABGC has three key...", and the only contributor was "Hjmegens" (talk))
• 13:03, 29 May 2026 Haars0011 talk contribs deleted page ANGSD 0.614 (content was: "[http://popgen.dk/wiki/index.php/ANGSD ANGSD] ANGSD is a software for analyzing next generation sequencing data. The software can handle a number of different input types from mapped reads to imputed genotype probabilities. Most methods take genotype uncertainty into account instead of basing the analysis on called genotypes. This is especially useful for low and medium dep...", and the only contributor was "Herre011" (talk))
• 13:03, 29 May 2026 Haars0011 talk contribs deleted page ABGSA (content was: "== Rationale of the ABGSA == == Description of the layout == == Metadata database == Metadatabase name is ABGSAschema +-----------------------+ | Tables_in_ABGSAschema | +-----------------------+ | ABGSAschema_main | | filesize | | fqfile_attributes | | gc_cont | +-----------------------+ The most recent mysqldump file...", and the only contributor was "Hjmegens" (talk))
• 13:02, 29 May 2026 Haars0011 talk contribs deleted page ABGC secretariat (content was: "== Animal Breeding and Genetics Chair Group == <pre> Visiting Address Zodiac building number 122 De Elst 1 6708 WD, Wageningen Telefax: +31 317 483929 office.abg@wur.nl </pre> == Genetics and Genomics Research Cluster == ===Headquarters Lelystad:=== <pre> Visiting address Edelhertweg 15 8219 PH Lelystad Postal address P.O. Box 65 8200 AB Lelystad tel: +31 320 238 238 fa...", and the only contributor was "Hjmegens" (talk))
• 13:02, 29 May 2026 Haars0011 talk contribs deleted page ABGC lab (content was: "* protocols", and the only contributor was "Hjmegens" (talk))
• 13:02, 29 May 2026 Haars0011 talk contribs deleted page ABGC bioinformatics (content was: "The ABGC has several shared bioinformatics facilities. == Bioinformatics at the Animal Breeding and Genetics chairgroup == * Monday Genome Meeting * Bioinformatics: topics * best practices, tips and workflows == Bioinformatics at the Genetics and Genom...", and the only contributor was "Hjmegens" (talk))
• 13:01, 29 May 2026 Haars0011 talk contribs deleted page 1000Bulls mapping pipeline at ABGC (content was: "The 1000 Bulls mapping pipeline as currently implemented at ABGC is an extension of a generic pipeline developed for pig at ABGC. Modifications include use of bwa 5.9 in stead of later versions, as per the requirements of the 1000 Bulls consortium. Furthermore, the script will automate setting metadata in the BAM files such as including the official 1000 Bulls Ids of the individual cows. Another modification is the use of an sqlite-based database that holds some the metadata re...")
• 13:00, 29 May 2026 Haars0011 talk contribs deleted page AsAn (content before blanking was: "=== Protocol with typical commands used for de novo assembly and annotation === * Preprocessing * Assembly * Annotation * Submission * Visualization === Preprocessing === === Assembly === === Annotation === === Functional annotation === === Submission === === Other types of analysis ===")
• 12:50, 29 May 2026 Haars0011 talk contribs deleted page Convert between MediaWiki and other formats (content was: "There are various programs that can convert to and from MediaWiki format, as used in this Wiki, and other formats. This page lists some of them and provides explanation of how to use them. == Pandoc == [http://johnmacfarlane.net/pandoc/demos.html Pandoc] is an open source tool that can convert between different markup styles and languages. There is a [http://johnmacfarlane.net/pandoc/try/ web version of Pandoc] but that seems limited to small documents only. There's also a C...")
• 12:48, 29 May 2026 Haars0011 talk contribs deleted page New page (content was: "Now here is some stuff", and the only contributor was "Megen002" (talk))
• 12:33, 29 May 2026 Haars0011 talk contribs changed group membership for Itter003: granted bureaucrat and administrator (Admins should be admin)
• 12:33, 29 May 2026 Haars0011 talk contribs changed group membership for Honfi001: granted bureaucrat and administrator (Admins should be admin)
• 12:32, 29 May 2026 Haars0011 talk contribs changed group membership for Prins0891: granted bureaucrat and administrator (Admins should be admin)
• 14:39, 27 March 2026 Haars0011 talk contribs created page File:Desktop extended form.png
• 14:39, 27 March 2026 Haars0011 talk contribs uploaded File:Desktop extended form.png
• 14:37, 27 March 2026 Haars0011 talk contribs created page File:Minimal desktop form.png
• 14:37, 27 March 2026 Haars0011 talk contribs uploaded File:Minimal desktop form.png
• 09:53, 3 March 2026 Haars0011 talk contribs created page Using a hardware key for better security (Created page with "Stub") Tag: Visual edit
• 09:23, 3 March 2026 Haars0011 talk contribs created page File:XFCE tile after.png
• 09:23, 3 March 2026 Haars0011 talk contribs uploaded File:XFCE tile after.png
• 09:12, 3 March 2026 Haars0011 talk contribs created page File:XFCE desktop.png
• 09:12, 3 March 2026 Haars0011 talk contribs uploaded File:XFCE desktop.png
• 09:05, 3 March 2026 Haars0011 talk contribs created page File:XFCE job info.png
• 09:05, 3 March 2026 Haars0011 talk contribs uploaded File:XFCE job info.png
• 09:02, 3 March 2026 Haars0011 talk contribs created page File:XFCE form extended.png
• 09:02, 3 March 2026 Haars0011 talk contribs uploaded File:XFCE form extended.png
• 08:59, 3 March 2026 Haars0011 talk contribs created page File:Basic XFCE form.png
• 08:59, 3 March 2026 Haars0011 talk contribs uploaded File:Basic XFCE form.png
• 08:56, 3 March 2026 Haars0011 talk contribs created page File:XFCE tile.png
• 08:56, 3 March 2026 Haars0011 talk contribs uploaded File:XFCE tile.png
• 08:55, 3 March 2026 Haars0011 talk contribs created page Linux desktop (stub page) Tag: Visual edit
• 10:04, 20 February 2026 Haars0011 talk contribs created page Linux Basic (Created page with "Text") Tag: Visual edit
• 15:20, 16 February 2026 Haars0011 talk contribs created page Open OnDemand (Created stub for ood) Tag: Visual edit
• 07:05, 1 April 2025 Haars0011 talk contribs created page Locale settings (Created page with "= How to change language settings = Language settings are used within Linux to decide things like the language of prompts, date and monetary settings, and how to handle "special" characters. As the HPC is used by people with very diverse backgrounds, we do not set a default setting for this. Of course, the OS still has defaults, so everything still works. If you want to change the default, the best way is to add your preferred setting to your .bashrc, and also to run...")
• 10:55, 14 November 2024 Haars0011 talk contribs created page Cost alerting (Created page with "To get an alert when your bill reaches a certain threshold, we have created a system that sends you an e-mail when you do. To use it/change it/delete it, do this: ml anunna alert_config.sh")
• 09:17, 29 October 2024 Haars0011 talk contribs created page Hints for courses (Created page with "On this page we (and you !) will place issues and solutions to those that have tripped up teachers or students in courses. * If you use images in your markDown cells, and ask students to copy over the notebook, the images might not show. This is caused by caching, to fix that, use (at the top of the cell) * %reset -f")
• 08:03, 28 October 2024 Haars0011 talk contribs created page Steps for courses (Created page with "= Steps for courses = To be able to run a course on Anunna, there are a couple of steps to take: * Create a reservation * Please alert us one month in advance so we can be sure there is space on the cluster * Use [https://support.wur.nl/esc?id=sc_cat_item&table=sc_cat_item&sys_id=9b7ab5004793d550d7dd9880236d43b6&recordUrl=com.glideapp.servicecatalog_cat_item_view.do%3Fv%3D1&sysparm_id=9b7ab5004793d550d7dd9880236d43b6 this] Service Now form to request the resources y...")
• 09:26, 27 September 2024 Haars0011 talk contribs created page File:CLC License server credentials.png
• 09:26, 27 September 2024 Haars0011 talk contribs uploaded File:CLC License server credentials.png
• 09:21, 27 September 2024 Haars0011 talk contribs created page File:CLC server credentials.png
• 09:21, 27 September 2024 Haars0011 talk contribs uploaded File:CLC server credentials.png
• 09:20, 27 September 2024 Haars0011 talk contribs created page CLC (Created page with "For some groups within WUR, Anunna hosts a CLC Genomics Server instance. We do the technical support, functional support is done by the groups themselves. CLC Server Connection credentials : Server name : clc.anunna.wur.nl Port : 7777 Username and password are your WUR credentials.")
• 09:32, 9 April 2024 Haars0011 talk contribs created page File:R libpaths.png
• 09:32, 9 April 2024 Haars0011 talk contribs uploaded File:R libpaths.png
• 19:14, 15 June 2023 User account Haars0011 talk contribs was created automatically