Hello,
I have just installed plinkseq-0.10 (I have tried the linux executables as well as building from source), the pbrowse script is not working since pbrowse.cgi is nowhere to be found.
Inflating plinkseq-x86_64-latest.zip gives:
Archive: plinkseq-x86_64-latest.zip
creating: plinkseq-0.10/
inflating: plinkseq-0.10/pseq
inflating: plinkseq-0.10/smp
inflating: plinkseq-0.10/mm
inflating: plinkseq-0.10/behead
inflating: plinkseq-0.10/gcol
inflating: plinkseq-0.10/browser
inflating: plinkseq-0.10/mongoose
inflating: plinkseq-0.10/pbrowse
and pbrowse looks like:
#!/bin/bash
if [ ! $1 ]
then
echo "Usage: pbrowse [project]"
exit
fi
ROOT_DIR=.
PROJECT=${1}
if [[ $PROJECT != /* ]]
then
PROJECT=`pwd`/${PROJECT}
fi
mongoose -r @prefix@/bin > /dev/null &
MONGOOSE_PID=$!
open http://localhost:8080/pbrowse.cgi?proj=${PROJECT} &
echo "Running pbrowse [ "${PROJECT}" ]"
read -n 1 -s
# shut down mongoose
disown $MONGOOSE_PID
kill -9 $MONGOOSE_PID
echo "Exiting pbrowse..."
Not sure what @prefix@/bin stand for however pbrowse.cgi is not present anywhere. Is the pbrowse.cgi meant to be replaced by the plinkseq-0.10/browser executable and the pbrowse script was not updated?
Any help would be appreciated,
RD