Date: Wed, 19 Mar 2025 21:50:20 GMT From: Fernando =?utf-8?Q?Apestegu=C3=ADa?= <fernape@FreeBSD.org> To: ports-committers@FreeBSD.org, dev-commits-ports-all@FreeBSD.org, dev-commits-ports-main@FreeBSD.org Subject: git: 71f86ac3cabb - main - science/afni: update to 25.0.09 Message-ID: <202503192150.52JLoKs6079010@gitrepo.freebsd.org>
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The branch main has been updated by fernape: URL: https://cgit.FreeBSD.org/ports/commit/?id=71f86ac3cabb460c5c1bd380e0ad27c13379de73 commit 71f86ac3cabb460c5c1bd380e0ad27c13379de73 Author: Fernando Apesteguía <fernape@FreeBSD.org> AuthorDate: 2025-03-14 08:43:47 +0000 Commit: Fernando Apesteguía <fernape@FreeBSD.org> CommitDate: 2025-03-19 21:49:53 +0000 science/afni: update to 25.0.09 --- science/afni/Makefile | 2 +- science/afni/distinfo | 6 +++--- .../files/patch-crorden_dcm2niix__console_makefile | 21 +++++++++++++-------- science/afni/pkg-plist | 3 +++ 4 files changed, 20 insertions(+), 12 deletions(-) diff --git a/science/afni/Makefile b/science/afni/Makefile index d49627230f51..539b15064cb2 100644 --- a/science/afni/Makefile +++ b/science/afni/Makefile @@ -1,6 +1,6 @@ PORTNAME= afni DISTVERSIONPREFIX= AFNI_ -DISTVERSION= 25.0.07 +DISTVERSION= 25.0.09 CATEGORIES= science biology graphics perl5 python MAINTAINER= fernape@FreeBSD.org diff --git a/science/afni/distinfo b/science/afni/distinfo index 7b99174ab817..e1acea3933d8 100644 --- a/science/afni/distinfo +++ b/science/afni/distinfo @@ -1,3 +1,3 @@ -TIMESTAMP = 1740554679 -SHA256 (afni-afni-AFNI_25.0.07_GH0.tar.gz) = 592b634f1d9bbd94fce4bdda35328427fbf10de508e7bd82c3b034b6a32346c7 -SIZE (afni-afni-AFNI_25.0.07_GH0.tar.gz) = 53235349 +TIMESTAMP = 1742370090 +SHA256 (afni-afni-AFNI_25.0.09_GH0.tar.gz) = f6b5b94557ae91b59492209d5e17b26164cf63b559e13c79c344d430656c48ea +SIZE (afni-afni-AFNI_25.0.09_GH0.tar.gz) = 53264676 diff --git a/science/afni/files/patch-crorden_dcm2niix__console_makefile b/science/afni/files/patch-crorden_dcm2niix__console_makefile index ad2ce657740c..5bba96585b68 100644 --- a/science/afni/files/patch-crorden_dcm2niix__console_makefile +++ b/science/afni/files/patch-crorden_dcm2niix__console_makefile @@ -1,24 +1,29 @@ ---- crorden/dcm2niix_console/makefile.orig 2024-02-29 01:05:45 UTC +--- crorden/dcm2niix_console/makefile.orig 2025-03-12 22:08:30 UTC +++ crorden/dcm2niix_console/makefile @@ -1,5 +1,5 @@ # Regular use -CFLAGS=-s -O3 +CXXFLAGS=-s -O3 - # Debugging - #CFLAGS=-g -@@ -34,7 +34,7 @@ ifneq ($(OS),Windows_NT) + # Common files used for everything + CFILES=main_console.cpp nii_foreign.cpp nii_dicom.cpp jpg_0XC3.cpp ujpeg.cpp nifti1_io_core.cpp nii_ortho.cpp nii_dicom_batch.cpp -o dcm2niix +@@ -37,9 +37,9 @@ ifneq ($(OS),Windows_NT) + OS = $(shell uname) + ifeq "$(OS)" "Darwin" #CFLAGS=-dead_strip -O3 - # ponder -sectcreate later [rickr] - # CFLAGS=-O3 -sectcreate __TEXT __info_plist Info.plist - CFLAGS= -O3 + # ponder -sectcreate later [rickr] + #CFLAGS=-O3 -sectcreate __TEXT __info_plist Info.plist + CXXFLAGS= -O3 #Apple notarization requires a Info.plist # For .app bundles, the Info.plist is a separate file, for executables it is appended as a section #you can check that the Info.plist section has been inserted with either of these commands -@@ -45,4 +45,4 @@ all: +@@ -51,7 +51,7 @@ all: endif endif all: -- g++ $(CFLAGS) -I. $(JSFLAGS) $(JFLAGS) $(LFLAGS) main_console.cpp nii_foreign.cpp nii_dicom.cpp jpg_0XC3.cpp ujpeg.cpp nifti1_io_core.cpp nii_ortho.cpp nii_dicom_batch.cpp -o dcm2niix -DmyDisableOpenJPEG +- g++ $(CFLAGS) -I. $(JSFLAGS) $(JFLAGS) $(LFLAGS) $(UFILES) + $(CXX) $(CXXFLAGS) -I. $(JFLAGS) main_console.cpp nii_foreign.cpp nii_dicom.cpp jpg_0XC3.cpp ujpeg.cpp nifti1_io_core.cpp nii_ortho.cpp nii_dicom_batch.cpp -o dcm2niix -DmyDisableOpenJPEG + + sanitize: + g++ -O1 -g -fsanitize=address -fno-omit-frame-pointer $(LFLAGS) $(UFILES) diff --git a/science/afni/pkg-plist b/science/afni/pkg-plist index 073e9561307a..bddc9f2c8c8d 100644 --- a/science/afni/pkg-plist +++ b/science/afni/pkg-plist @@ -500,6 +500,7 @@ bin/adjunct_apqc_tsnr_general bin/adjunct_atlas_points_to_labeltable bin/adjunct_aw_tableize_roi_info.py bin/adjunct_calc_mont_dims.py +bin/adjunct_cbar_out bin/adjunct_combine_str.py bin/adjunct_deob_around_origin bin/adjunct_is_label.py @@ -546,6 +547,7 @@ bin/build_afni.py bin/byteorder bin/cat_matvec bin/ccalc +bin/chauffeur_map_rois bin/cifti_tool bin/colorbar_tool.py bin/column_cat @@ -668,6 +670,7 @@ bin/slow_surf_clustsim.py bin/smooth.R bin/sswarper2 bin/stimband +bin/stouffer bin/strblast bin/suma bin/suma_change_spechome | help
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