https://impilo.diploide.net/ 2026-05-01T18:38:16+00:00 https://impilo.diploide.net/ https://impilo.diploide.net/lib/exe/fetch.php?media=wiki:logo.png text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:artemis_12&rev=1622316954&do=diff Installation of Artemis 12 Additional libraries Java, already installed. Procedure Here is the procedure to install Artemis: * After downloading the TAR archive and decompressing it into /home/bioubuntu, move the newly created artemis folder under text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:bioc_26&rev=1622316954&do=diff Installation of Bioconductor 2.6 Additional libraries At system level: * libxml2-dev * libcurl4-openssl-dev % sudo apt-get install libxml2 libcurl4-openssl-dev R will take care of everything else ;-) Procedure Bioconductor having an absolute requirement of having R text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:clustalw_2012&rev=1622316954&do=diff Installation of CLUSTALW 2.0.12 Additional libraries None required Procedure Here is the procedure to install CLUSTALW from its source code: * The source code archive was downloaded and put under /home/bioubuntu, decompressed and the created folder is moved toward text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:clustalx_2012&rev=1622316954&do=diff Installation of CLUSTALX 2.0.12 Additional libraries The following libraries are required: * libqt4-dev % sudo apt-get -y install libqt4-dev Procedure Follow this procedure to install CLUSTALX from source code: * The archive with the source code has been downloaded from the web site into text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:develop_impilo_10.04&rev=1622316954&do=diff Software Development Environments selected for Impilo Here is the content of the file named develop_module.txt used to build Impilo 10.04. # # Developer's tools for Impilo # build-essential sun-java6-jdk bioperl python-biopython php5-cli php5-gd php5-mysql php-pear #ia32-libs Only in 64-bits VMs xorg-dev text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:emboss_631&rev=1622316954&do=diff Instructions to install and configure EMBOSS 6.3.1 Additional libraries The following librairies are necessary to compile EMBOSS as well as the EMBASSY applications: * libx11-dev * libgd2-xpm-dev * libpng3-dev * libpng12-dev * libgd-tools text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:graphics_impilo_10.04&rev=1622316954&do=diff Image Manipulation Applications in Impilo 10.04 Here is the content of graphics_module.txt used in building Impilo 10.04. # # Graphics tools for Impilo # gimp gimp-data gimp-ufraw gimp-helpbrowser gimp-help-common gimp-help-fr gimp-help-en gimp-data-extras gimp-gutenprint gimp-plugin-registry inkscape imagemagick xfmedia xfmedia-remote-plugin xsane xsane-doc gimp2.0-quiteinsane text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:imagej_144d&rev=1622316954&do=diff Installation of ImageJ 1.44d Additional libraries Java, already installed. Procedure here is the procedure to install ImageJ: * ImageJ is contained in a JAR archive, all ready to execute via a script called run found in the folder created after decompressing the Zip archive. text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:internet_impilo_10.04&rev=1622316954&do=diff Internet applications selected for Impilo Here is the contant of the internet_module.txt file used in building Impilo 10.04. # # Minimal Internet utilities for Impilo # firefox firefox-gnome-support thunderbird thunderbird-gnome-support thunderbird-locale-fr filezilla sshfs text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:iolibs_1124_200v7&rev=1622316954&do=diff Installation instructions for io_libs 1.12.4 Additional libraries No additional library is necessary. Procedure To install io_libs from its source code, you simply need to follow this recipe: * The archive with the source code is downloaded from the web site and decompressed in text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:jchempaint_312&rev=1622316954&do=diff Installation of JChemPaint 3.1.0 Additional libraries Java, already installed. Procedure Here is the procedure to install JChemPaint: * JChemPaint is distributed as a JAR archive, ready to execute. Create a folder under /home/bioubuntu to put the archive in and move this folder to text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:jmol_1202&rev=1622316954&do=diff Installation of Jmol 12.0.2 Additional libraries Java, already installed. Procedure Here is the procedure to install Jmol: * Jmol is distributed as a JAR archive, ready to be run from a startup script. On Jmol's Sourceforge site, you need to get the text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:mira_3.2.0rc2&rev=1622316954&do=diff Installation of MIRA 3.2.0RC2 Additional librairies The following libraries are necessary: * libtcmalloc-minimal0 * libboost-all-dev * flex % sudo apt-get -y install libtcmalloc-minimal0 libboost-all-dev flex Procedure Here is the procedure to install MIRA 3 from its source code: text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:office_impilo_10.04&rev=1622316954&do=diff Office-like Applications in Impilo 10.04 Here is the content of the file named office_module.txt used in Impilo. # # Office-like applications for Impilo # abiword abiword-plugin-grammar abiword-plugin-mathview aspell-en aspell-fr evince gnumeric gnumeric-plugins-extra gnumeric-doc language-support-fr language-pack-fr language-support-en language-pack-en text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:primer3_222&rev=1622316954&do=diff Installation of Primer3 2.2.2-beta Additional libraries No additional library is necessary. Procedure Here is the procedure to install Primer3 from source code: * The archive with the source code is downloaded from its website into /home/bioubuntu text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:pymol_13&rev=1622316954&do=diff Installation of Pymol 1.3 Additional libraries * tcl8.5 * tcl8.5-dev * tk8.5 * tk8.5-dev * freeglut3 * freeglut3-dev * libfreetype6 * libfreetype6-dev * python-pmw * subversion % sudo apt-get install -y tcl8.5 tcl8.5-dev tk8.5 tk8.5-dev freeglut3 freeglut3-dev libfreetype6 libfreetype6-dev python-pmw subversion text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:readseq_2130&rev=1622316954&do=diff Installation of ReadSeq 2.1.30 Additional libraries Java, already installed. Procedure Here is the procdure to install: * ReadSeq is distributed as a JAR archive, ready to run. You create a folder under /home/bioubuntu to put it in, you download the JAR file and you move this folder under text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:rproject_2111&rev=1622316954&do=diff Installation of R 2.11.1 Additional libraries No additional library is necessary. Procedure Installing R * Source or package? In this case, it is a really good question to ask oneself... Impilo's principal philosophy is to install from source as much as possible but for R, it was decided to start from the packages that are found on R's web site. Many of the applications found in Impilo are dependent on a correct R install so let's save ourselves from a mighty headache! text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:samtools_018&rev=1622316954&do=diff Installation instructions for SAMtools 0.1.8 Additional libraries You need to install the following libraries: * libncurses-dev % sudo apt-get install -y libncurses-dev Procedure To install SAMtools from source code, you need to follow this recipe: text/html 2021-05-29T19:35:54+00:00 Anonymous (anonymous@undisclosed.example.com) https://impilo.diploide.net/doku.php?id=en:install:10_04_a10_build:xfcegui_impilo_10.04&rev=1622316954&do=diff Impilo 10.04 - Xfce Environment Here is the content of the xfcegui_module.txt file use to build Impilo 10.04. gtk2-engines-xfce A GTK+-2.0 theme engine for Xfce orage Calendar for Xfce Desktop Environment thunar File Manager for Xfce thunar-volman Thunar extension for volumes management xfce4-appfinder Application finder for the Xfce4 Desktop Environment xfce4-panel The Xfce4 desktop environment panel xfce4-session Xfce4 Session Manager xfce4-settings …