[gnuastro-commits] master bed09896 1/3: Radial-profile: Remove symbolic link directory from the temporary directory

[Mohammad Akhlaghi]

branch: master
commit bed0989676fbb89870ada23a3043888a8ef79762
Author: Sepideh Eskandarlou <sepideh.eskandarlou@gmail.com>
Commit: Mohammad Akhlaghi <mohammad@akhlaghi.org>

    Radial-profile: Remove symbolic link directory from the temporary directory
    
    Until now, when the given temporary directory was relative, the script
    would crash. Because we had used a symbolic link for saving some outputs
    that did not change. In this situation the script would search for the
    relative temporary directory in the temporary directory, which does not
    exist, so it would crash.
    
    With this commit, everywhere that we want to use the symbolic links, first
    we change to the temporary directory and then make our symbolic link
    without any directory information. After making our symbolic link, we
    change back to the runnnig directory. This is necessary because the
    'realpath' command does not exist in some operating systems.
---
 bin/script/radial-profile.in | 31 ++++++++++++++++++++++---------
 1 file changed, 22 insertions(+), 9 deletions(-)

diff --git a/bin/script/radial-profile.in b/bin/script/radial-profile.in
index 090ce63c..f70fd835 100644
--- a/bin/script/radial-profile.in
+++ b/bin/script/radial-profile.in
@@ -58,6 +58,12 @@ scriptname=@SCRIPT_NAME@
 
 
 
+# Define the path work directory.
+curdir=$(pwd)
+
+
+
+
 
 # Output of `--usage' and `--help':
 print_usage() {
@@ -430,8 +436,10 @@ if [ -d $tmpdir ]; then junk=1; else mkdir $tmpdir; fi
 # For the standard deviation, besides being empty or not, we first need to
 # make sure it is actually a file (note that it can also be a number). If
 # its a file, we'll crop it and set 'instd' to be the new cropped file.
-crop=$tmpdir/crop.fits
-cropstd=$tmpdir/crop-std.fits
+cropbase=crop.fits
+crop=$tmpdir/$cropbase
+cropstdbase=crop-std.fits
+cropstd=$tmpdir/$cropstdbase
 cropwidth=$(echo $rmax | awk '{print $1*2+1}')
 astcrop $inputs --hdu=$hdu --center=$xcenter,$ycenter --mode=img \
         --width=$cropwidth --output=$crop $quiet
@@ -467,12 +475,14 @@ ycenter=$(echo "$ycenter $cropwidth $dxy" \
 # With the goal of having higher spatial resolution, here the input image
 # is over-sampled. This is only done if the user request this with the
 # option --oversample.
-values=$tmpdir/values.fits
-valuesstd=$tmpdir/valuesstd.fits
+valuesbase=values.fits
+values=$tmpdir/$valuesbase
+valuesstdbase=valuesstd.fits
+valuesstd=$tmpdir/$valuesstdbase
 if [ x$oversample = x ]; then
-    ln -fs $crop $values
+    cd $tmpdir; ln -fs $cropbase $valuesbase; cd $curdir
     if [ x"$instd" != x ] && [ -f "$instd" ]; then
-        ln -fs $cropstd $valuesstd
+        cd $tmpdir; ln -fs $cropstdbase $valuesstdbase; cd $curdir
     fi
 else
     xcenter=$(echo $xcenter | awk '{print '$oversample'*$1}')
@@ -532,7 +542,8 @@ fi
 # axisratio     -- axis ratio.
 # rmax          -- magnitude of the profile within the truncation radius 
(rmax).
 # 1             -- Truncation in radius unit.
-aperturesraw=$tmpdir/apertures-raw.fits
+aperturesrawbase=apertures-raw.fits
+aperturesraw=$tmpdir/$aperturesrawbase
 echo "1 $xcenter $ycenter 7 $rmax 1 $positionangle $axisratio 1 1" \
      | astmkprof --background=$values --backhdu=1 --mforflatpix \
                  --mode=img --clearcanvas --type=int16 \
@@ -550,12 +561,14 @@ echo "1 $xcenter $ycenter 7 $rmax 1 $positionangle 
$axisratio 1 1" \
 # number of pixels on each aperture (at each radius) will be larger. Most
 # of times this option is good to average over a larger number of pixels
 # and increase the signal-to-noise ratio of the measurement.
-aperturesrebinned=$tmpdir/apertures-rebin.fits
+aperturesrebinnedbase=apertures-rebin.fits
+aperturesrebinned=$tmpdir/$aperturesrebinnedbase
 if [ x"$undersample" != x ]; then
     astarithmetic $aperturesraw $undersample / \
                   $quiet --output $aperturesrebinned
 else
-    ln -fs $aperturesraw $aperturesrebinned
+    cd $tmpdir; ln -fs $aperturesrawbase $aperturesrebinnedbase
+    cd $curdir
 fi