Remove obsolete shell client

tools/iric-data.sh

-#!/usr/bin/env bash
-
-SCRIPT_PATH=$(pwd)
-action=$1
-arg2=$2
-BASE_URL=https://thepond.bioinfo.iric.ca
-COOKIES=$SCRIPT_PATH/.iricdata.cookies.txt
-
-help() {
-    echo "To download files in a dataset, provide \"get\" as first argument, followed by a dataset ID."
-    echo "ex. ./iric-data.sh get DSeccbc87e"
-    echo ""
-    echo "To upload a file, provide \"put\" as first argument, followed by the path to the file you wish to upload."
-    echo "Arguments --annotation (json string or path to json file), --dataset (dataset id), --lab (lab id) and --as-user (user id) may also be added."
-    echo "ex. ./iric-data.sh put a.txt --annotation='{\"a\": \"b\"}' --lab=2 --dataset=11 --as-user=3"
-    echo ""
-    echo "To avoid being prompted for your username and password combination. Place your username on the first line "
-    echo "and password on the 2nd line of a file named .auth alongside this script."
-    echo ""
-    echo "The service url defaults to $BASE_URL. This may be overriden with the --url parameter."
-    echo "ex. ./iric-data.sh get DSeccbc87e --url http://binfo06.iric.ca:8000"
-}
-
-login() {
-    if test -f ".auth"; then
-        login=$(head -n 1 .auth)
-        password=$(head -2 .auth | tail -1)
-    else
-        read -p "Login: " login
-        read -p "Password: " -s password
-    fi
-
-    echo -n "$password" > .iricdata.auth.txt
-    chmod 600 .iricdata.auth.txt
-
-    echo ""
-    echo "Django Auth: get csrftoken ..."
-    $CURL_BIN $LOGIN_URL > /dev/null
-    csrftoken="$(grep csrftoken $COOKIES | sed 's/^.*csrftoken\s*//' | tr -d '[[:blank:]]')"
-    DJANGO_TOKEN="csrfmiddlewaretoken=$csrftoken"
-
-    echo " perform login ..."
-    $CURL_BIN \
-        -d "$DJANGO_TOKEN&username=$login" --data-urlencode "password@.iricdata.auth.txt" \
-        -X POST $LOGIN_URL
-}
-
-if [ -z "$action" ]; then
-    help
-    exit
-fi
-
-LONG=annotation:,lab:,dataset:,as-user:,url:,help
-OPTS=$(getopt --long $LONG --name "$0" -- "$@")
-if [ $? != 0 ] ; then exit 1 ; fi
-eval set -- "$OPTS"
-LAB=''
-while true ; do
-  case "$1" in
-    --annotation )
-      ANNOTATION="$2"
-      shift 2
-      ;;
-    --lab )
-      LAB="$2"
-      shift 2
-      ;;
-    --dataset )
-      DATASET="$2"
-      shift 2
-      ;;
-    --as-user )
-      AS_USER="$2"
-      shift 2
-      ;;
-    --url )
-      BASE_URL="$2"
-      shift 2
-      ;;
-    --help )
-      help
-      exit
-      ;;
-    -- )
-      shift
-      break
-      ;;
-    *)
-      echo "Internal error!"
-      exit 1
-      ;;
-  esac
-done
-
-LOGIN_URL=${BASE_URL}/login
-FILE_UPLOAD_URL=${BASE_URL}/secure/servlet/datafiles/upload
-CURL_BIN="curl -c $COOKIES -b $COOKIES -e $LOGIN_URL"
-
-case "$action" in
-    "get")
-        dataset_id=$arg2
-        if [ -z "$dataset_id" ]; then
-            help
-            exit
-        fi
-        login
-        echo " fetching files ..."
-        mkdir -p $dataset_id
-        for f in `$CURL_BIN -s -L \
-             -d "$DJANGO_TOKEN&username=$login" --data-urlencode "password@.iricdata.auth.txt" \
-             -X GET ${BASE_URL}/secure/dataset/${dataset_id}/file-list`
-        do
-            echo "Downloading" $f
-            (cd $dataset_id;
-            $CURL_BIN -L -C - \
-             -d "$DJANGO_TOKEN&username=$login" --data-urlencode "password@$SCRIPT_PATH/.iricdata.auth.txt" \
-             -X GET $f -O -J --user-agent "WebKit")
-        done
-    ;;
-    "put")
-        if [ -z "$arg2" ]; then
-            help
-            exit
-        else
-            FILE=$arg2
-        fi
-
-        if [[ -f "$ANNOTATION" ]]; then
-            ANNOTATION="$(cat $ANNOTATION)"
-            echo $ANNOTATION
-        fi
-
-        login
-        echo " uploading" $FILE "..."
-        $CURL_BIN -b "csrftoken=$csrftoken" -F "$DJANGO_TOKEN" \
-        -F "annotations=$ANNOTATION" \
-        -F "lab=$LAB" \
-        -F "dataset=$DATASET" \
-        -F "as_user=$AS_USER" \
-        -F "file=@$FILE" ${FILE_UPLOAD_URL}
-    ;;
-    *)
-        help
-    ;;
-esac
-
-# Cleanup
-rm -f .iricdata.auth.txt $COOKIES