[MacPorts] #64537: qgis3 @3.22.2_0+grass+postgresql13+python39: error gdalwarp missing or insufficient permissions

[MacPorts]

#64537: qgis3 @3.22.2_0+grass+postgresql13+python39: error gdalwarp missing or
insufficient  permissions
----------------------------------------+--------------------
 Reporter:  bal-agates                  |      Owner:  (none)
     Type:  defect                      |     Status:  new
 Priority:  Normal                      |  Milestone:
Component:  ports                       |    Version:  2.7.1
 Keywords:  qgis3 gdalwarp clip raster  |       Port:  qgis3
----------------------------------------+--------------------
 When running Raster > Extraction > Clip Raster by Mask Layer I am getting
 the following error:

 {{{
 QGIS version: 3.22.2-Białowieża
 Qt version: 5.15.2
 Python version: 3.9.10
 GDAL version: 3.4.0
 GEOS version: 3.10.1-CAPI-1.16.0
 PROJ version: Rel. 8.2.1, January 1st, 2022
 PDAL version: 2.3.0 (git-version: Release)
 Algorithm started at: 2022-01-26T16:08:10
 Algorithm 'Clip raster by mask layer' starting…
 Input parameters:
 { 'ALPHA_BAND' : False, 'CROP_TO_CUTLINE' : True, 'DATA_TYPE' : 0, 'EXTRA'
 : '', 'INPUT' : '/Users/brett/GIS/DEM/AZ/AZ-
 Bouse/USGS_13_n34w115_20211215.tif', 'KEEP_RESOLUTION' : False, 'MASK' :
 '/Users/brett/qgisdata/AZ/Data/azgs_dgm_107/Shapefiles/bouse_extent.shp',
 'MULTITHREADING' : False, 'NODATA' : None, 'OPTIONS' : '', 'OUTPUT' :
 'TEMPORARY_OUTPUT', 'SET_RESOLUTION' : False, 'SOURCE_CRS' : None,
 'TARGET_CRS' : None, 'X_RESOLUTION' : None, 'Y_RESOLUTION' : None }

 GDAL command:
 gdalwarp -overwrite -of GTiff -cutline
 /Users/brett/qgisdata/AZ/Data/azgs_dgm_107/Shapefiles/bouse_extent.shp -cl
 bouse_extent -crop_to_cutline /Users/brett/GIS/DEM/AZ/AZ-
 Bouse/USGS_13_n34w115_20211215.tif
 /private/var/folders/5z/18s4yhbx4zj7lw9zq0h8gqym0000gn/T/processing_bgrVLE/76575832d3e445f9a817631801f721c8/OUTPUT.tif
 GDAL command output:
 Process gdalwarp failed to start. Either gdalwarp is missing, or you may
 have insufficient permissions to run the program.
 Execution failed after 0.02 seconds

 Loading resulting layers
 Algorithm 'Clip raster by mask layer' finished
 }}}

 The error message seems to imply that QGIS is trying to run gdalwarp as a
 shell command?  I have verified that I have gdalwarp installed and that it
 runs from the command line:

 {{{
 $ ll /opt/local/bin/gdalwarp
 16 -rwxr-xr-x  1 root  admin  88629 Jan 20 19:55 /opt/local/bin/gdalwarp
 $ gdalwarp --version
 GDAL 3.4.0, released 2021/11/04
 }}}

 With this version of QGIS3 I was able to import a GeoTIFF which I assume
 uses some GDAL functions or commands.

 In QGIS3 > Preferences >Environment I see
 - GISBASE = /opt/local/bin
 In QGIS3 > Preferences >Current Environment variables I see [Readonly -
 Bold which seems to indicates modified at startup]
 - PATH = /usr/bin:/bin:/usr/sbin:/sbin: [Bold]
 - GISBASE = /opt/local/bin [Bold]

 Probably not helpful but I used QGIS3 > Plugins > Python Console and ran

 {{{
 >>> print(os.environ['PATH'])
 /usr/bin:/bin:/usr/sbin:/sbin
 }}}

 When QGIS3 tries to run gdalwarp is it using GISBASE or PATH or a
 concatenation of both for the command path?

 I checked QGIS permissions in Apple > System Preferences > Security &
 Privacy > Files and Folders it had all options enabled.  I even tried an
 experiment where I added QGIS3 to Apple > System Preferences > Security &
 Privacy > Full Disk Access.

 I do not know how to verify what $PATH QGIS3 uses when it executes
 gdalwarp (assuming it is trying to execute a shell command version).

 I have considered the possibility the error message is misleading.  Could
 gdalwarp have been found and run but it generated an error that wasn't
 handled well?

 MacPort configuration problem or QGIS3 problem?  I did a quick scan of
 QGIS issues and didn't see anything that is an obvious match.

 I am running on a macOS 12.1, arm64 and a few days ago I did a "port
 upgrade outdated".  I have done something similar on earlier versions
 without problems but cannot remember when.  Maybe not on my macOS 12/arm64
 computer?  Versions

 {{{
 QGIS version
 3.22.2-Białowieża
 QGIS code branch
 Release 3.22
 Qt version
 5.15.2
 Python version
 3.9.10
 GDAL/OGR version
 3.4.0
 PROJ version
 8.2.1
 EPSG Registry database version
 v10.041 (2021-12-03)
 GEOS version
 3.10.1-CAPI-1.16.0
 SQLite version
 3.37.2
 PDAL version
 2.3.0
 PostgreSQL client version
 13.5
 SpatiaLite version
 5.0.1
 QWT version
 6.1.6
 QScintilla2 version
 2.13.1
 OS version
 macOS 12.1

 Active Python plugins
 QuickOSM
 2.0.0
 latlontools
 3.5.9
 processing
 2.12.99
 sagaprovider
 2.12.99
 grassprovider
 2.12.99
 db_manager
 0.1.20
 MetaSearch
 0.3.5
 }}}

-- 
Ticket URL: <https://trac.macports.org/ticket/64537>
MacPorts <https://www.macports.org/>
Ports system for macOS