From dd01ea6aea5a956fe3251576a83035f1c8c70a03 Mon Sep 17 00:00:00 2001
From: Yujing Huang <yhuang43@mgh.harvard.edu>
Date: Fri, 18 Feb 2022 12:08:35 -0500
Subject: [PATCH] rename mris_gradient_unwarp to mri_gradunwarp

---
 CMakeLists.txt                                       |  2 +-
 .../CMakeLists.txt                                   |  6 +++---
 .../mri_gradunwarp.cpp                               | 12 ++++++------
 3 files changed, 10 insertions(+), 10 deletions(-)
 rename {mris_gradient_unwarp => mri_gradunwarp}/CMakeLists.txt (62%)
 rename mris_gradient_unwarp/mris_gradient_unwarp.cpp => mri_gradunwarp/mri_gradunwarp.cpp (98%)

diff --git a/CMakeLists.txt b/CMakeLists.txt
index ba9f5da669c..091223f3864 100644
--- a/CMakeLists.txt
+++ b/CMakeLists.txt
@@ -524,6 +524,7 @@ if(NOT MINIMAL)
     mri_fuse_intensity_images
     mri_gca_ambiguous
     mri_glmfit
+    mri_gradunwarp
     mri_gtmpvc
     mri_gtmseg
     mri_hausdorff_dist
@@ -602,7 +603,6 @@ if(NOT MINIMAL)
     mris_find_flat_regions
     mris_flatten
     mris_fwhm
-    mris_gradient_unwarp
     mris_hausdorff_dist
     mris_init_global_tractography
     mris_interpolate_warp
diff --git a/mris_gradient_unwarp/CMakeLists.txt b/mri_gradunwarp/CMakeLists.txt
similarity index 62%
rename from mris_gradient_unwarp/CMakeLists.txt
rename to mri_gradunwarp/CMakeLists.txt
index 346879d6af5..145d6c027bf 100644
--- a/mris_gradient_unwarp/CMakeLists.txt
+++ b/mri_gradunwarp/CMakeLists.txt
@@ -1,11 +1,11 @@
-project(mris_gradient_unwarp)
+project(mri_gradunwarp)
 
 include_directories(${FS_INCLUDE_DIRS})
 
-set(TARGET_EXE mris_gradient_unwarp)
+set(TARGET_EXE mri_gradunwarp)
 
 add_executable(${TARGET_EXE} 
-    mris_gradient_unwarp.cpp)
+    mri_gradunwarp.cpp)
 
 target_link_libraries(${TARGET_EXE} utils)
 
diff --git a/mris_gradient_unwarp/mris_gradient_unwarp.cpp b/mri_gradunwarp/mri_gradunwarp.cpp
similarity index 98%
rename from mris_gradient_unwarp/mris_gradient_unwarp.cpp
rename to mri_gradunwarp/mri_gradunwarp.cpp
index ca35c7927d6..ff896b1123a 100644
--- a/mris_gradient_unwarp/mris_gradient_unwarp.cpp
+++ b/mri_gradunwarp/mri_gradunwarp.cpp
@@ -14,26 +14,26 @@
 /* examples:
  *
  * unwarp at given crs (debugging)
- * 1. mris_gradient_unwarp/mris_gradient_unwarp 
+ * 1. mri_gradunwarp/mri_gradunwarp 
  *    --gradcoeff $FS_TEST/gradunwarp/example/coeff_Sonata.grad 
  *    --i $FS_TEST/gradunwarp/example/orig.mgz 
  *    --crs 0,0,0
  *
  * unwarp for given ras (debugging)
- * 2. mris_gradient_unwarp/mris_gradient_unwarp 
+ * 2. mri_gradunwarp/mri_gradunwarp 
  *    --gradcoeff $FS_TEST/gradunwarp/example/coeff_Sonata.grad 
  *    --i $FS_TEST/gradunwarp/example/orig.mgz 
  *    --ras 0.1,0.2,0.3
  *
  * create gradient unwarp transformation table
- * 3. mris_gradient_unwarp/mris_gradient_unwarp 
+ * 3. mri_gradunwarp/mri_gradunwarp 
  *    --gradcoeff $FS_TEST/gradunwarp/example/coeff_Sonata.grad 
  *    --i $FS_TEST/gradunwarp/example/orig.mgz 
  *    --save_transtbl gradunwarp.m3z
  *    --nthreads 10
  *
  * transform given volume, save gradient unwarp transformation table
- * 4. mris_gradient_unwarp/mris_gradient_unwarp 
+ * 4. mri_gradunwarp/mri_gradunwarp 
  *    --gradcoeff $FS_TEST/gradunwarp/example/coeff_Sonata.grad 
  *    --i $FS_TEST/gradunwarp/example/orig.mgz 
  *    --o orig.unwarped.cubic.mgz --interp cubic --unwarpvol
@@ -41,7 +41,7 @@
  *    --nthreads 10
  *
  * transform given volume using input gradient unwarp transformation table
- * 5. mris_gradient_unwarp/mris_gradient_unwarp 
+ * 5. mri_gradunwarp/mri_gradunwarp 
  *    --load_transtbl $FS_TEST/gradunwarp/transtbl/savetbl/gradunwarp.m3z
  *    --i $FS_TEST/gradunwarp/example/orig.mgz 
  *    --o orig.unwarped.cubic.mgz --interp cubic --unwarpvol
@@ -118,7 +118,7 @@ int main(int argc, char *argv[])
 
   interpcode = MRIinterpCode(interpmethod);
 
-  nargs = handleVersionOption(argc, argv, "mris_gradient_unwarp");
+  nargs = handleVersionOption(argc, argv, "mri_gradunwarp");
   if (nargs && argc - nargs == 1) exit (0);
   argc -= nargs;
   cmdline = argv2cmdline(argc,argv);