initial add

- accept ReproNim/module-reproducible-basics#26 (comment)
- accept ReproNim/module-reproducible-basics#26 (comment)
- include ReproNim/module-reproducible-basics#26 (comment)
- accept ReproNim/module-reproducible-basics#26 (comment)

Author: jdkent

.repronim.bashrc

@@ -0,0 +1,127 @@
+set -o noclobber  # do not overwrite existing files
+set -o emacs  # use the emacs shortcuts
+
+# function to help remind users about the shortcuts
+repronim_bashrc_help() {
+LINE="Commandline/Cursor Editing Shortcuts::
+ Ctrl-a: Go to the beginning of the line you are currently typing on
+ Ctrl-e: Go to the end of the line you are currently typing on
+ Ctrl-u: Remove text on the line before the cursor position
+ Ctrl-h: Remove preceding symbol (same as backspace)
+ Ctrl-w: Delete the word before the cursor
+ Ctrl-k: Remove text on the line after the cursor position
+ Ctrl-t: Swap the last two characters before the cursor
+ Alt-t:  Swap the last two words before the cursor
+ Alt-f:  Move cursor forward one word on the current line
+ Alt-b:  Move cursor backward one word on the current line
+ Tab:    Auto-complete files, folders, and command names
+ Ctrl-x Ctrl-e OR Alt-e in zsh:  Edit command line text in the editor (as defined by VISUAL environment variable)"
+
+CONTROL="Job Control Shortcuts::
+ Ctrl-c: Kill currently running process
+ Ctrl-d: Exit current shell
+ Ctrl-z: Suspend currently running process. fg restores it, and bg places it into background execution"
+
+HISTORY="History Shortcuts::
+ Ctrl-p:	Previous line in the history
+ Ctrl-n:	Next line in the history
+ Ctrl-r:	Bring up next match backwards in shell history"
+
+    if [ $# -lt 1 ]; then
+        echo -e "${LINE}\n\n${CONTROL}\n\n${HISTORY}"
+        return 0
+    fi
+
+    while [ $# -ge 1 ]; do
+        case "$1"
+        in
+        n)
+            echo -e "$LINE\n"
+            shift;;
+        line)
+            echo -e "$LINE\n"
+            shift;;
+        c)
+            echo -e "$CONTROL\n"
+            shift;;
+        control)
+            echo -e "$CONTROL\n"
+            shift;;
+        h)
+            echo -e "$HISTORY\n"
+            shift;;
+        history)
+            echo -e "$HISTORY\n"
+            shift;;
+        -h)
+            echo "Options are: n, line, c, control, h, history or blank"
+            echo "Example1: print_shortcuts n c h"
+            echo "Example2: print_shortcuts"
+            return 0
+            ;;
+        --help)
+            echo "Options are: n, line, c, control, h, history or blank"
+            echo "Example1: print_shortcuts n c h"
+            echo "Example2: print_shortcuts"
+            return 0
+            ;;
+        *)
+            echo "Option $1 not recognized use (n, line, c, control, h, history or blank)"
+            echo "type print_shortcuts -h for help"
+            echo "Example1: print_shortcuts n c h"
+            echo "Example2: print_shortcuts"
+            return 1
+            ;;
+        esac
+    done
+}
+
+
+# create an eternal bash history file
+# https://debian-administration.org/article/543/Bash_eternal_history
+
+bhf="${HOME}/.bash_eternal_history"
+if [ ! -f "${bhf}" ]; then
+    touch "${bhf}"
+fi
+
+if [ "$(stat -c %a "${bhf}")" != "600" ]; then
+    chmod 600 "${bhf}"
+fi
+
+# NOTE: I changed ${PROMPT_COMMAND:...} to ${PROMPT_COMMAND%%;:...}
+# to account for trailing semicolons existing in the commmand (like if you've installed pyenv)
+# see: https://github.com/pyenv/pyenv-virtualenv/issues/247
+export HISTTIMEFORMAT="%s "
+
+PROMPT_COMMAND="${PROMPT_COMMAND%%;:+$PROMPT_COMMAND ; }"'echo $$ $USER "$(history 1)" >> ${bhf}'
+
+# make a terminal prompt that shows the full path: http://ezprompt.net/
+export PS1="\[\e[33m\]\u\[\e[m\]:\[\e[35m\]\s\[\e[m\]\[\e[37m\]:\[\e[m\]\[\e[36m\]\w\[\e[m\]\\$ "
+
+if [ ! -z "$PS1" ]; then
+    # include a marker into PS1 that we are in the singularity image
+    # Since we are using git-annex forcd  images, SINGULARITY_NAME would
+    # carry the dereferenced filename - git-annex key which is not
+    # that useful to see, so we just add [SING] marker
+    if ! echo "$PS1" | grep -q SINGULARITY_NAME && [ ! -z "$SINGULARITY_NAME" ]; then
+        # proposed in https://github.com/datalad/datalad-container/pull/84
+        if [ ! -z "${DATALAD_CONTAINER_NAME:-}" ]; then
+            _name="$DATALAD_CONTAINER_NAME"
+        elif echo "$SINGULARITY_NAME" | grep -q '^MD5E-'; then
+            # singularity < 3. dereferences symlinks -
+            # annexed keys are too long/useless in this context, we shorten
+            _name=$(echo "${SINGULARITY_NAME##*--}" | cut -c 1-8)...
+        else
+            _name="$SINGULARITY_NAME"
+        fi
+        # strip our possible suffix
+        _name="$(echo "$_name" | sed -e 's,.sing$,,g')"
+        export PS1="singularity:$_name > $PS1"
+    fi
+fi
+
+# USER variable might not be defined in sanitized environment
+# but could be needed by some tools, e.g. FSL. See
+# https://github.com/kaczmarj/neurodocker/pull/270
+export USER="${USER:=$(whoami)}"