add configure-file capability at install

cmake/functions.cmake

@@ -11,6 +11,20 @@ function(add_subdirectories)
 endfunction()
 
 
+# install_configured(<files>)
+# Installs a file configured with cmake variables
+function(install_configured)
+  cmake_parse_arguments(INSTALL "" "DESTINATION" "" ${ARGN})
+  foreach(FILE ${INSTALL_UNPARSED_ARGUMENTS})
+    install(CODE "
+      message(STATUS \"Configuring: ${CMAKE_INSTALL_PREFIX}/${INSTALL_DESTINATION}/${FILE}\")
+      set(FS_VERSION ${FS_VERSION})
+      configure_file(${CMAKE_CURRENT_SOURCE_DIR}/${FILE} ${CMAKE_INSTALL_PREFIX}/${INSTALL_DESTINATION} @ONLY)"
+    )
+  endforeach()
+endfunction()
+
+
 # install_symlinks(<files> DESTINATION <dir> TYPE <type>)
 # Unfortunately, cmake does not follow symlinks when installing files,
 # so this is a wrapper for the install() function that will actually follow

scripts/CMakeLists.txt

@@ -180,7 +180,6 @@ install(PROGRAMS
   rebuild_gca_atlas.csh
   rca-base-init
   rca-long-tp-init
-  recon-all
   recon-all-exvivo
   recon-all.makefile
   reconbatchjobs
@@ -271,6 +270,11 @@ install(PROGRAMS
   DESTINATION bin
 )
 
+install_configured(
+  recon-all
+  DESTINATION bin
+)
+
 install_pyscript(
   long_submit_jobs
   long_qdec_table

scripts/recon-all

@@ -3,30 +3,15 @@
 #
 # recon-all
 #
-# script to run all of the reconstruction routines
-#
+# Script to run the entire reconstruction pipline.
 # Original Author: Doug Greve
-# CVS Revision Info:
-#    $Author: greve $
-#    $Date: 2017/02/08 21:17:33 $
-#    $Revision: 1.601 $
-	#
-# Copyright © 2011-2016 The General Hospital Corporation (Boston, MA) "MGH"
-#
-# Terms and conditions for use, reproduction, distribution and contribution
-# are found in the 'FreeSurfer Software License Agreement' contained
-# in the file 'LICENSE' found in the FreeSurfer distribution, and here:
-#
-# https://surfer.nmr.mgh.harvard.edu/fswiki/FreeSurferSoftwareLicense
-#
-# Reporting: [email protected]
 #
+# Copyright © 2011-2020 The General Hospital Corporation (Boston, MA) "MGH"
 #
 
-#
 umask 002;
 
-set VERSION = '$Id: recon-all,v 1.601 2017/02/08 21:17:33 greve Exp $';
+set VERSION = '@FS_VERSION@';
 set ProgName = `basename $0`;
 set inputargs = ($argv);
 set subjid = ();