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Code Issues Releases Activity

science/afni: update to 20.2.11

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Reported by:	portscout
This commit is contained in:
Fernando Apesteguía 2020-08-13 05:44:11 +00:00
parent 2c41ab917b
commit 169892aa75
Notes: svn2git 2021-03-31 03:12:20 +00:00 
svn path=/head/; revision=544785
5 changed files with 15 additions and 59 deletions
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2
science/afni/Makefile
View File

@ -2,7 +2,7 @@
PORTNAME= afni
DISTVERSIONPREFIX= AFNI_
DISTVERSION= 20.2.08
DISTVERSION= 20.2.11
CATEGORIES= science biology graphics perl5 python
MAINTAINER= ports@FreeBSD.org

6
science/afni/distinfo
View File

@ -1,3 +1,3 @@
TIMESTAMP = 1596395346
SHA256 (afni-afni-AFNI_20.2.08_GH0.tar.gz) = 509e841cb7d2832d6e86a426f0afd9846a9ea700f10294812b1e1d45b13b32ba
SIZE (afni-afni-AFNI_20.2.08_GH0.tar.gz) = 43387687
TIMESTAMP = 1597164968
SHA256 (afni-afni-AFNI_20.2.11_GH0.tar.gz) = b500c4a4612c54fa05281fe3af14717dc1c8b972eac4a4d44c49e19ff1bf2d4d
SIZE (afni-afni-AFNI_20.2.11_GH0.tar.gz) = 42708230

20
science/afni/files/patch-Makefile.INCLUDE
View File

@ -1,6 +1,6 @@
--- Makefile.INCLUDE.orig 2020-07-21 18:06:10 UTC
--- Makefile.INCLUDE.orig 2020-08-10 17:42:08 UTC
+++ Makefile.INCLUDE
@@ -92,7 +92,7 @@ MISC = AFNI_atlas_spaces.niml AFNI.Xdefaults AFNI.a
@@ -90,7 +90,7 @@ MISC = AFNI_atlas_spaces.niml AFNI.Xdefaults AFNI.a
## AFNI package, but included because they are useful. Some of
## them are Open Source programs, not from the AFNI group at all.
@ -9,7 +9,7 @@
# mpegtoppm in above list
@@ -105,7 +105,7 @@ EXTRAS = cjpeg djpeg whirlgif myget Xphace rmz aiv m
@@ -103,7 +103,7 @@ EXTRAS = cjpeg djpeg whirlgif myget Xphace rmz aiv m
PROGS_1 = afni to3d from3d abut 3dclust nsize 3dinfo 3dproject 3dmerge count \
sfim tfim ftosh 3dttest 3ddup imrotate imreg imstat 3dnvals \
fim2 imand FD2 sqwave immask imdump imaver 3dhistog 3dfim 3daxialize \
@ -18,16 +18,16 @@
waver 3dnewid 3dcalc ccalc imcalc 1dmatcalc 3drefit 3dbucket \
3dNLfim 3dTSgen AlphaSim 3dFWHM plugout_tt 3dnoise plugout_ijk \
3dMannWhitney 3dWilcoxon 3dKruskalWallis 3dFriedman 3dRegAna \
@@ -118,7 +118,7 @@ PROGS_2 = 3dTshift 3dDetrend 1dfft 1dcat 3drename 1dn
@@ -116,7 +116,7 @@ PROGS_2 = 3dTshift 3dDetrend 1dfft 1dcat 3drename 1dn
3dWavelets 3dfim+ imcutup imcat 3dWinsor 3dZeropad 3dTagalign \
3dMean 3dAttribute cat_matvec 3dOverlap 3dClipLevel 3dZregrid \
3dEntropy 3ddelay ent16 3dRowFillin 1dgrayplot 3dToutcount 1dsum \
- 3dExtrema qhull strblast 3dConvolve 3dZcutup 3dZcat 3dTqual 3dGetrow \
+ 3dExtrema strblast 3dConvolve 3dZcutup 3dZcat 3dTqual 3dGetrow \
3dTcorrelate 3dAnatNudge 3dcopy Vecwarp 3dMINCtoAFNI 3dCM fdrval \
3dTcorrelate 3dAnatNudge 3dcopy Vecwarp 3dCM fdrval \
3dAFNItoANALYZE siemens_vision ge_header mayo_analyze 3dAFNItoNIFTI \
3dAutoTcorrelate 3dFDR rtfeedme 3dAutomask 3dAFNItoMINC 3dBrickStat \
@@ -141,7 +141,7 @@ PROGS_3 = 3dDeconvolve_f 3dAnhist 3dAFNIto3D 3dUnifor
3dAutoTcorrelate 3dFDR rtfeedme 3dAutomask 3dBrickStat \
@@ -139,7 +139,7 @@ PROGS_3 = 3dDeconvolve_f 3dAnhist 3dAFNIto3D 3dUnifor
PROGS_4 = 3dBlurInMask 3dRank 3dFFT 1dgenARMA11 3dPeriodogram 1dAstrip \
3dLocalPV 3dBandpass 3dSetupGroupInCorr 3dGroupInCorr 3dTcorr1D \
3dClustSim 3dRetinoPhase 3dMaskToASCII 3dttest++ 3dDTtoDWI \
@ -36,7 +36,7 @@
1dCorrelate 3dCountSpikes 3dNwarpCalc dicom_hinfo apsearch 1dBport \
3dNormalityTest 3dmask_tool FIRdesign help_format 2perm 3dClustCount \
column_cat 3dUnifize 3dNwarpCat 3dQwarp 3dLocalHistog 3dNwarpAdjust \
@@ -167,7 +167,7 @@ PROGRAMS = $(PROGS_1) $(PROGS_2) $(PROGS_3) $(PROGS_4)
@@ -165,7 +165,7 @@ PROGRAMS = $(PROGS_1) $(PROGS_2) $(PROGS_3) $(PROGS_4)
PROGRAMS_NOPLUG = afni to3d from3d abut 3dclust nsize 3dinfo 3dproject 3dmerge \
sfim tfim ftosh 3dttest 3ddup imrotate imreg imstat 3dnoise count \
fim2 imand FD2 sqwave immask imdump imaver 3dhistog 3dfim imupsam \
@ -45,7 +45,7 @@
waver 3dnewid 3dcalc ccalc imcalc 2dImReg 3dmaskave adwarp fdrval \
3dMannWhitney 3dWilcoxon 3dKruskalWallis 3dFriedman 3dRegAna \
imstack byteorder 3dDeconvolve 3dTcat 3drotate 3dvolreg 1dplot \
@@ -210,7 +210,7 @@ PROGRAMS_NOPLUG = afni to3d from3d abut 3dclust nsize
@@ -208,7 +208,7 @@ PROGRAMS_NOPLUG = afni to3d from3d abut 3dclust nsize
PROGRAMS_EXE = afni.exe to3d from3d abut 3dclust nsize 3dinfo 3dproject 3dmerge \
sfim tfim ftosh 3dttest 3ddup imrotate imreg imstat 3dnvals count \
fim2 imand FD2 sqwave immask imdump imaver 3dhistog 3dfim 3dGetrow \
@ -54,7 +54,7 @@
waver 3dnewid 3dcalc ccalc imcalc 1dmatcalc 3drefit 3dbucket \
3dAFNItoNIML AlphaSim 3dFWHM plugout_tt 3dnoise plugout_ijk \
3dMannWhitney 3dWilcoxon 3dKruskalWallis 3dFriedman 3dRegAna \
@@ -4109,7 +4109,10 @@ R_Makevars_mod_linux:
@@ -4030,7 +4030,10 @@ R_Makevars_mod_linux:
R_io.so: R_io.c $(LIBMRI_OBJ) $(R_MAKEVARS_DEP)
( if which R >/dev/null ; then \

43
science/afni/files/patch-netcdf-3.5.0_src_configure
View File

@ -1,43 +0,0 @@
--- netcdf-3.5.0/src/configure.orig 2019-05-10 21:23:56 UTC
+++ netcdf-3.5.0/src/configure
@@ -933,10 +933,10 @@ echo "configure:928: checking for top-level source-dir
- echo "checking for m4 preprocessor" 1>&6
-echo "configure:938: checking for m4 preprocessor" >&5
+ echo "checking for gm4 preprocessor" 1>&6
+echo "configure:938: checking for gm4 preprocessor" >&5
case "${M4-unset}" in
- unset) for ac_prog in m4 gm4
+ unset) for ac_prog in gm4
do
# Extract the first word of "$ac_prog", so it can be a program name with args.
set dummy $ac_prog; ac_word=$2
@@ -969,9 +969,9 @@ fi
test -n "$M4" && break
done
-test -n "$M4" || M4="m4"
+test -n "$M4" || M4="gm4"
;;
- *) for ac_prog in $M4 m4 gm4
+ *) for ac_prog in $M4 gm4
do
# Extract the first word of "$ac_prog", so it can be a program name with args.
set dummy $ac_prog; ac_word=$2
@@ -1004,11 +1004,11 @@ fi
test -n "$M4" && break
done
-test -n "$M4" || M4="m4"
+test -n "$M4" || M4="gm4"
;;
esac
- echo $ac_n "checking m4 flags""... $ac_c" 1>&6
-echo "configure:1012: checking m4 flags" >&5
+ echo $ac_n "checking gm4 flags""... $ac_c" 1>&6
+echo "configure:1012: checking gm4 flags" >&5
case "${M4FLAGS-unset}" in
unset) M4FLAGS=-B10000 ;;
esac

3
science/afni/pkg-plist
View File

@ -39,7 +39,6 @@ bin/2swap
bin/3dABoverlap
bin/3dAFNIto3D
bin/3dAFNItoANALYZE
bin/3dAFNItoMINC
bin/3dAFNItoNIFTI
bin/3dAFNItoNIML
bin/3dAFNItoRaw
@ -133,7 +132,6 @@ bin/3dMEMA
bin/3dMEMA.R
bin/3dMEPFM
bin/3dMEPFM.R
bin/3dMINCtoAFNI
bin/3dMSE
bin/3dMVM
bin/3dMVM.R
@ -338,6 +336,7 @@ bin/@NoisySkullStrip
bin/@Purify_1D
bin/@Quiet_Talkers
bin/@ROI_Corr_Mat
bin/@ROI_decluster
bin/@ROI_modal_grow
bin/@R_funclist
bin/@RenamePanga