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hamin
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bashrc file updted
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‎v4.0.3/Dockerfile‎

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# Copyright (c) Bioinformatics Core Facility of the Max Planck Institute for Biology of Ageing.
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# Distributed under the terms of the Modified BSD License.
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FROM mpgagebioinformatics/bioinformatics_software:v4.0.2
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LABEL maintainer "[email protected]"
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USER root
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#########################################
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#### Bioinformatics tools start here ####
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#########################################
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##########################
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#### this part to end ####
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##########################
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# Set bashrc
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COPY bash.bashrc /etc/bash.bashrc
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RUN mkdir -p /Dockerfiles/v4.0.3
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COPY Dockerfile /Dockerfiles/v4.0.3
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USER $NB_USER

‎v4.0.3/bash.bashrc‎

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# System-wide .bashrc file for interactive bash(1) shells.
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# To enable the settings / commands in this file for login shells as well,
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# this file has to be sourced in /etc/profile.
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# If not running interactively, don't do anything
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[ -z "$PS1" ] && return
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# don't put duplicate lines or lines starting with space in the history.
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# See bash(1) for more options
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HISTCONTROL=ignoreboth
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# append to the history file, don't overwrite it
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shopt -s histappend
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# for setting history length see HISTSIZE and HISTFILESIZE in bash(1)
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HISTSIZE=1000
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HISTFILESIZE=2000
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# check the window size after each command and, if necessary,
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# update the values of LINES and COLUMNS.
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shopt -s checkwinsize
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# If set, the pattern "**" used in a pathname expansion context will
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# match all files and zero or more directories and subdirectories.
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#shopt -s globstar
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# make less more friendly for non-text input files, see lesspipe(1)
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#[ -x /usr/bin/lesspipe ] && eval "$(SHELL=/bin/sh lesspipe)"
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# set variable identifying the chroot you work in (used in the prompt below)
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if [ -z "${debian_chroot:-}" ] && [ -r /etc/debian_chroot ]; then
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debian_chroot=$(cat /etc/debian_chroot)
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fi
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# set a fancy prompt (non-color, overwrite the one in /etc/profile)
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# set a fancy prompt (non-color, unless we know we "want" color)
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case "$TERM" in
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xterm-color) color_prompt=yes;;
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esac
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# but only if not SUDOing and have SUDO_PS1 set; then assume smart user.
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# if ! [ -n "${SUDO_USER}" -a -n "${SUDO_PS1}" ]; then
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# PS1='${debian_chroot:+($debian_chroot)}\u@\h:\w\$ '
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# fi
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# uncomment for a colored prompt, if the terminal has the capability; turned
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# off by default to not distract the user: the focus in a terminal window
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# should be on the output of commands, not on the prompt
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#force_color_prompt=yes
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if [ -n "$force_color_prompt" ]; then
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if [ -x /usr/bin/tput ] && tput setaf 1 >&/dev/null; then
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# We have color support; assume it's compliant with Ecma-48
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# (ISO/IEC-6429). (Lack of such support is extremely rare, and such
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# a case would tend to support setf rather than setaf.)
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color_prompt=yes
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else
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color_prompt=
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fi
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fi
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if [ "$color_prompt" = yes ]; then
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PS1='${debian_chroot:+($debian_chroot)}\[\033[01;32m\]\u@\h\[\033[00m\]:\[\033[01;34m\]\w\[\033[00m\]\$ '
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else
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PS1='${debian_chroot:+($debian_chroot)}\u@\h:\w\$ '
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fi
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unset color_prompt force_color_prompt
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# If this is an xterm set the title to user@host:dir
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case "$TERM" in
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xterm*|rxvt*)
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PS1="\[\e]0;${debian_chroot:+($debian_chroot)}\u@\h: \w\a\]$PS1"
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;;
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*)
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;;
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esac
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# enable color support of ls and also add handy aliases
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if [ -x /usr/bin/dircolors ]; then
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test -r ~/.dircolors && eval "$(dircolors -b ~/.dircolors)" || eval "$(dircolors -b)"
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alias ls='ls --color=auto'
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#alias dir='dir --color=auto'
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#alias vdir='vdir --color=auto'
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#alias grep='grep --color=auto'
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#alias fgrep='fgrep --color=auto'
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#alias egrep='egrep --color=auto'
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fi
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# colored GCC warnings and errors
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#export GCC_COLORS='error=01;31:warning=01;35:note=01;36:caret=01;32:locus=01:quote=01'
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# some more ls aliases
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#alias ll='ls -l'
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#alias la='ls -A'
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#alias l='ls -CF'
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# Alias definitions.
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# You may want to put all your additions into a separate file like
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# ~/.bash_aliases, instead of adding them here directly.
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# See /usr/share/doc/bash-doc/examples in the bash-doc package.
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if [ -f ~/.bash_aliases ]; then
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. ~/.bash_aliases
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fi
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# Commented out, don't overwrite xterm -T "title" -n "icontitle" by default.
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# If this is an xterm set the title to user@host:dir
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#case "$TERM" in
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#xterm*|rxvt*)
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# PROMPT_COMMAND='echo -ne "\033]0;${USER}@${HOSTNAME}: ${PWD}\007"'
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# ;;
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#*)
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# ;;
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#esac
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# enable bash completion in interactive shells
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if ! shopt -oq posix; then
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if [ -f /usr/share/bash-completion/bash_completion ]; then
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. /usr/share/bash-completion/bash_completion
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elif [ -f /etc/bash_completion ]; then
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. /etc/bash_completion
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fi
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fi
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# if the command-not-found package is installed, use it
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if [ -x /usr/lib/command-not-found -o -x /usr/share/command-not-found/command-not-found ]; then
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function command_not_found_handle {
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# check because c-n-f could've been removed in the meantime
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if [ -x /usr/lib/command-not-found ]; then
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/usr/lib/command-not-found -- "$1"
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return $?
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elif [ -x /usr/share/command-not-found/command-not-found ]; then
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/usr/share/command-not-found/command-not-found -- "$1"
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return $?
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else
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printf "%s: command not found\n" "$1" >&2
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return 127
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fi
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}
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fi
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# source and export
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source /etc/profile.d/modules.sh
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export PROMPT_COMMAND='DIR=`pwd|sed -e "s!$HOME!~!"`; if [ ${#DIR} -gt 30 ]; then CurDir=..${DIR:${#DIR}-28}; else CurDir=$DIR; fi'
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export PS1="\[\033[01;31m\]container\[\033[00m\]:\[\033[01;34m\]\$CurDir\$\[\033[00m\] "
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color_prompt=yes
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unset PYTHONHOME PYTHONUSERBASE PYTHONPATH
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export MODULEPATH=$MODF/general:$MODF/libs:$MODF/bioinformatics

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