| 1a13cf9 | afniHQ | 17 July 2020, 21:16:41 UTC | version update | 17 July 2020, 21:16:41 UTC |
| 4bb9ee9 | leej3 | 17 July 2020, 17:07:08 UTC | add coxplot to include dirs | 17 July 2020, 20:31:08 UTC |
| 9cfcda0 | leej3 | 17 July 2020, 16:52:19 UTC | make build: add coxplot and ptaylor dirs to suma include dirs | 17 July 2020, 20:31:08 UTC |
| 429b5e6 | leej3 | 17 July 2020, 16:49:48 UTC | cmake:tidy coxplot build | 17 July 2020, 20:31:08 UTC |
| d4acd68 | leej3 | 17 July 2020, 16:47:15 UTC | consolidate coxplot.h | 17 July 2020, 20:31:08 UTC |
| e3af5a0 | afniHQ | 17 July 2020, 02:28:02 UTC | version update | 17 July 2020, 02:28:02 UTC |
| 10178ff | rick reynolds | 16 July 2020, 20:03:46 UTC | shared libs for ubuntu 16 | 16 July 2020, 20:03:46 UTC |
| 9ffc7da | rick reynolds | 16 July 2020, 18:53:06 UTC | shared libs for centos 7 | 16 July 2020, 18:53:06 UTC |
| a5b99d3 | rick reynolds | 16 July 2020, 15:09:14 UTC | clean adwarp target | 16 July 2020, 15:09:14 UTC |
| 7aee915 | mrneont | 15 July 2020, 20:48:02 UTC | ptaylor progs: set of header updates, part 2 (suma_suma.h to suma_objs.h) | 15 July 2020, 22:24:40 UTC |
| def5f23 | mrneont | 15 July 2020, 20:31:35 UTC | ptaylor progs: set of header updates, part 1 (suma_suma.h to suma_objs.h) | 15 July 2020, 22:24:40 UTC |
| b5d0ae0 | john lee | 15 July 2020, 22:24:16 UTC | Merge pull request #185 from leej3/explore_x_removal_again X extrication from mrilib.h | 15 July 2020, 22:24:16 UTC |
| 96f8cd9 | rick reynolds | 15 July 2020, 20:12:36 UTC | Apply -DREPLACE_XT in all current Makefiles. Pass $CEXTRA along for building R_io.so. | 15 July 2020, 20:12:36 UTC |
| 0045a8f | leej3 | 15 July 2020, 13:18:34 UTC | tidy plugin checking and linking options Plugin checking now improved for both gcc and clang. Adapts to removal of X from mri Linking options are now working for gcc and clang. i.e. errors for undefined symbols are raised when appropriate | 15 July 2020, 17:24:20 UTC |
| c541a66 | leej3 | 15 July 2020, 14:52:40 UTC | fix R_io.c | 15 July 2020, 15:15:42 UTC |
| 54d225e | leej3 | 14 July 2020, 19:30:09 UTC | add adwarp fix | 15 July 2020, 15:12:45 UTC |
| 495e81e | leej3 | 14 July 2020, 17:58:05 UTC | cmake:fix for local glut build | 15 July 2020, 15:12:45 UTC |
| 1f49347 | leej3 | 14 July 2020, 17:15:37 UTC | cmake: fix build for mrilib with no X dependencies | 15 July 2020, 15:12:45 UTC |
| 36019b7 | leej3 | 14 July 2020, 17:12:55 UTC | cmake: improve management of suma/ptaylor targets | 15 July 2020, 15:12:45 UTC |
| dfb0a48 | leej3 | 14 July 2020, 16:40:53 UTC | header fixes for mrilib.h defenestration | 15 July 2020, 15:12:45 UTC |
| 37b1f89 | leej3 | 08 July 2020, 15:02:23 UTC | Revert "Cmake build, Make X11 required" This reverts commit b30f89cfc51717c2abd99dda3523eb90ae8f0612. | 15 July 2020, 14:57:09 UTC |
| 490bc3f | RWCox | 10 July 2020, 21:59:19 UTC | will no one rid me of this troublesome software? | 15 July 2020, 14:57:09 UTC |
| 9b44f29 | RWCox | 10 July 2020, 21:25:34 UTC | patch XtMalloc out of model_*.c funcs | 15 July 2020, 14:57:09 UTC |
| 2707492 | RWCox | 10 July 2020, 21:09:57 UTC | patch XtMalloc out of model_*.c funcs | 15 July 2020, 14:57:09 UTC |
| ac75a97 | RWCox | 10 July 2020, 20:51:01 UTC | mcw_malloc dummy funcs for SUMA | 15 July 2020, 14:57:09 UTC |
| 1dc26c2 | RWCox | 10 July 2020, 20:21:11 UTC | more Xt falling from windows like Russian doctors | 15 July 2020, 14:57:09 UTC |
| c7ec664 | RWCox | 10 July 2020, 19:12:01 UTC | toss Xt out of the window also | 15 July 2020, 14:57:09 UTC |
| 6c163ed | RWCox | 09 July 2020, 22:02:57 UTC | defenestration of mcw_malloc | 15 July 2020, 14:57:09 UTC |
| 0e1be0c | RWCox | 14 July 2020, 12:49:41 UTC | Merge branch 'master' of https://github.com/afni/afni | 14 July 2020, 12:49:41 UTC |
| af0b01c | RWCox | 14 July 2020, 12:49:31 UTC | remove afni.h from thd_atlas and thd_ttatlas_query | 14 July 2020, 12:49:31 UTC |
| 15fb705 | daniel glen | 14 July 2020, 03:11:33 UTC | Merge branch 'master' of https://github.com/afni/AFNI added atlas label search | 14 July 2020, 03:11:33 UTC |
| 063b6bf | daniel glen | 14 July 2020, 03:11:24 UTC | label selectors for atlas datasets | 14 July 2020, 03:11:24 UTC |
| c4baab0 | RWCox | 13 July 2020, 19:47:33 UTC | disable THD_check_AFNI_version() | 13 July 2020, 19:47:33 UTC |
| 7d392c4 | afniHQ | 13 July 2020, 02:25:47 UTC | version update | 13 July 2020, 02:25:47 UTC |
| 8b7918d | mrneont | 12 July 2020, 21:27:09 UTC | quotize | 12 July 2020, 21:27:09 UTC |
| 32b405d | daniel glen | 12 July 2020, 16:35:02 UTC | Merge branch 'master' of https://github.com/afni/AFNI longname changes | 12 July 2020, 16:35:02 UTC |
| 67144ba | daniel glen | 12 July 2020, 16:34:56 UTC | atlas longname changes | 12 July 2020, 16:34:56 UTC |
| db78f9c | afniHQ | 11 July 2020, 00:20:41 UTC | version update | 11 July 2020, 00:20:41 UTC |
| a17f600 | daniel glen | 10 July 2020, 20:31:10 UTC | mode_smooth_size=1 | 10 July 2020, 20:31:10 UTC |
| 175e4a8 | daniel glen | 10 July 2020, 20:26:45 UTC | Merge branch 'master' of https://github.com/afni/AFNI mode_smooth_size=1 | 10 July 2020, 20:26:45 UTC |
| 74eaf36 | daniel glen | 10 July 2020, 20:26:40 UTC | mode_smooth_size=1 | 10 July 2020, 20:26:40 UTC |
| 131f3e0 | rick reynolds | 08 July 2020, 20:00:15 UTC | Merge branch 'master' of https://github.com/afni/AFNI | 08 July 2020, 20:00:15 UTC |
| c9f5bdd | rick reynolds | 08 July 2020, 20:00:10 UTC | sync | 08 July 2020, 20:00:10 UTC |
| 2141de7 | RWCox | 08 July 2020, 14:43:21 UTC | update replaceXt.h and various software to replace X11 Boolean type with our own RwcBoolean | 08 July 2020, 14:43:21 UTC |
| e3643e2 | AFNI CircleCI User | 07 July 2020, 13:30:37 UTC | update gifti version in cmake build | 07 July 2020, 14:28:24 UTC |
| 85aa648 | leej3 | 06 July 2020, 18:42:49 UTC | Link libmri against gifti_clib | 07 July 2020, 14:28:24 UTC |
| 57a8b9d | leej3 | 06 July 2020, 15:00:16 UTC | add test for suma opening gii format | 07 July 2020, 14:28:24 UTC |
| b38331f | leej3 | 06 July 2020, 14:59:50 UTC | for tests requiring omp, skip when omp not used previous behavior was to raise error at time of test collection | 07 July 2020, 14:28:24 UTC |
| b30f89c | leej3 | 06 July 2020, 21:42:15 UTC | Cmake build, Make X11 required since libmri links against coxplot, it still requires X to build | 06 July 2020, 21:44:32 UTC |
| a3fc552 | leej3 | 06 July 2020, 20:34:18 UTC | cmake build: do not download test data for nifti and gifti | 06 July 2020, 21:44:16 UTC |
| 83ac179 | rick reynolds | 06 July 2020, 20:22:12 UTC | Merge branch 'master' of https://github.com/afni/AFNI | 06 July 2020, 20:22:12 UTC |
| d9c7f9a | rick reynolds | 06 July 2020, 20:21:51 UTC | no cheat for gifti verb | 06 July 2020, 20:21:51 UTC |
| 540ee2e | afniHQ | 06 July 2020, 01:30:29 UTC | version update | 06 July 2020, 01:30:29 UTC |
| 52e006b | leej3 | 02 July 2020, 21:05:23 UTC | fix some file permissions of installed files in cmake build | 02 July 2020, 23:17:07 UTC |
| 0f0a742 | leej3 | 02 July 2020, 18:23:51 UTC | Use Xquartz glut for apple build on cmake | 02 July 2020, 23:17:07 UTC |
| 447f924 | leej3 | 01 July 2020, 18:20:51 UTC | improve motif find module I am not sure whether there is a better way to solve this problem that is described in #131 and #158. It seems that it is triggered in different ways on different systems. I think it can occur for both afni and suma/ It manifests in similar errors. A basic description of the problem is that the gui builds find but a segfault occurs when at runtime. Xt and Xm are involved. Other details of the error include: + Executing the commnd with LD_PRELOAD set to the motif library (Xm) usually overcomes the issue. + providing the --no-as-needed flag to the linker is typically required to fix the issue. + executing "objdump -p suma" (and on osx I think the equivalent would be "objdump -macho -dylibs-used ./targets_built/suma" though the error does not seem to occur on osx) shows Xt before Xm in the dynamic section + Moving Xm before Xt in the link order (regardless of subsequent appearances) is required to fix the issue. This is specifically referring to the gcc link order. The link order specified in cmake may not necessarily correspond to this. In addition to adding --no-as-needed as a public link option of motif, this commit adds Xt as a dependency to help enforce correct link order. It is worth noting that things can still be broken by various linking patterns in cmake. It seems a robust solution is to link against mrix (which links mri,Xm,Xt,and X11 publically). Additionally build time checks of the gui binaries is likely a useful strategy in making sure this is a build time failure in future instead of a runtime failure. | 02 July 2020, 23:17:07 UTC |
| 4b9a684 | leej3 | 01 July 2020, 14:34:59 UTC | tidy linking in cmake build This makes use of the X related targets that are populated by the X11 find module in cmake >=3.14.7 Additionally, XmHTML is now explicitly linked as either AFNI or system version to provide fragile, accidental linking against a system XmHTML. mrix makes motif,xt,and x11 public dependencies to avoid issues when linking x libraries | 02 July 2020, 23:17:07 UTC |
| 8c7ee0b | leej3 | 01 July 2020, 22:51:54 UTC | add a compile time check of suma dynamic library link order | 02 July 2020, 23:17:07 UTC |
| d5ecc5e | leej3 | 01 July 2020, 15:08:55 UTC | fix suma test add quick suma gui test | 02 July 2020, 23:17:07 UTC |
| 947acc1 | RWCox | 01 July 2020, 21:23:23 UTC | more updates to ARMA(p,1) work | 01 July 2020, 21:23:23 UTC |
| 9ea8db4 | RWCox | 01 July 2020, 19:50:34 UTC | Merge branch 'master' of https://github.com/afni/afni | 01 July 2020, 19:50:34 UTC |
| 1393209 | RWCox | 01 July 2020, 19:29:51 UTC | first code for new ARMA(p,1) models | 01 July 2020, 19:29:51 UTC |
| 2d8ada4 | mrneont | 01 July 2020, 15:13:39 UTC | @Install_NMT: tweak params/opts | 01 July 2020, 15:13:39 UTC |
| eca8365 | mrneont | 01 July 2020, 14:52:30 UTC | @Install_NMT: added in, dsets put in place on server | 01 July 2020, 14:52:30 UTC |
| f371a52 | afniHQ | 01 July 2020, 02:18:46 UTC | version update | 01 July 2020, 02:18:46 UTC |
| fea2534 | mrneont | 01 July 2020, 02:16:06 UTC | APQC RSFMRI seed list: include all IBT_C* spaces | 01 July 2020, 02:16:06 UTC |
| bd24014 | rick reynolds | 30 June 2020, 14:12:30 UTC | retab | 30 June 2020, 14:12:30 UTC |
| 25a18ad | leej3 | 29 June 2020, 15:52:12 UTC | enable builds with a disparity with the make build system | 29 June 2020, 21:10:26 UTC |
| 5f7d42d | leej3 | 29 June 2020, 15:45:06 UTC | tidy omp linking in cmake build | 29 June 2020, 21:10:26 UTC |
| d80880d | afni-gangc | 29 June 2020, 15:27:25 UTC | small fix | 29 June 2020, 15:27:25 UTC |
| a74dc2f | RWCox | 29 June 2020, 12:50:29 UTC | tweak thd_table.c - remove messages | 29 June 2020, 12:50:29 UTC |
| ae32b56 | RWCox | 29 June 2020, 12:49:54 UTC | Merge branch 'master' of https://github.com/afni/afni | 29 June 2020, 12:49:54 UTC |
| b06f289 | mrneont | 29 June 2020, 00:07:27 UTC | func is in ab module now... sigh | 29 June 2020, 00:07:27 UTC |
| 9f8c1d6 | mrneont | 29 June 2020, 00:05:00 UTC | turn off auto-verbosity in globber | 29 June 2020, 00:05:00 UTC |
| f63b213 | mrneont | 29 June 2020, 00:03:32 UTC | afni_base: func for glob listing with afni selectors | 29 June 2020, 00:03:32 UTC |
| 223983a | RWCox | 28 June 2020, 18:32:03 UTC | Merge branch 'master' of https://github.com/afni/afni | 28 June 2020, 18:32:03 UTC |
| 58523bf | afni-discoraj | 28 June 2020, 06:31:51 UTC | circos package install update | 28 June 2020, 06:31:51 UTC |
| 69cf0dc | AFNI CircleCI User | 26 June 2020, 14:31:33 UTC | do not use pytest-parallel for tests An odd timeout error is occuring on circleci that may be due to this parallelism (along with some other unknown failure) Testing this as a solution, it appears no test is failing (inferred by attaching to the timed-out process and interupting it and observing the output that says all tests passed). | 26 June 2020, 17:12:00 UTC |
| b6ddf50 | AFNI CircleCI User | 26 June 2020, 16:09:13 UTC | set minimum numpy version currently scipy is failing with out a minimum version of 1.14.5 making this change in the base docker image for general testing as well as the afnipy package (although it technically is not linked with RetroTS, some future strategy for improving management of RetroTS and its dependencies should be implemented so this sort of failure is managed in a more straight forward manner. | 26 June 2020, 17:12:00 UTC |
| 147d72c | leej3 | 25 June 2020, 18:38:30 UTC | fix cmake build from 890b8ec9b0098f | 26 June 2020, 17:12:00 UTC |
| a9c0142 | RWCox | 26 June 2020, 13:07:31 UTC | tweak afni help | 26 June 2020, 13:07:31 UTC |
| a29ca19 | RWCox | 25 June 2020, 01:49:56 UTC | Merge branch 'master' of https://github.com/afni/afni | 25 June 2020, 01:49:56 UTC |
| 1f2e159 | RWCox | 24 June 2020, 21:36:35 UTC | correct spelling | 24 June 2020, 21:36:35 UTC |
| f5a610b | rick reynolds | 24 June 2020, 20:18:37 UTC | Merge branch 'master' of https://github.com/afni/AFNI | 24 June 2020, 20:18:37 UTC |
| c76515b | rick reynolds | 24 June 2020, 20:18:33 UTC | eol | 24 June 2020, 20:18:33 UTC |
| 6b02f1e | RWCox | 24 June 2020, 20:18:15 UTC | Merge branch 'master' of https://github.com/afni/afni | 24 June 2020, 20:18:15 UTC |
| 74ad541 | RWCox | 24 June 2020, 20:18:04 UTC | replace system strcasestr with AFNI_strcasestr | 24 June 2020, 20:18:04 UTC |
| 68e469c | mrneont | 24 June 2020, 15:20:49 UTC | afni_base: add in blank print message | 24 June 2020, 15:20:49 UTC |
| a823c64 | RWCox | 24 June 2020, 01:02:46 UTC | Merge branch 'master' of https://github.com/afni/afni | 24 June 2020, 01:02:46 UTC |
| 886c294 | RWCox | 24 June 2020, 01:02:35 UTC | oops | 24 June 2020, 01:02:35 UTC |
| c9b77d3 | mrneont | 23 June 2020, 21:09:42 UTC | digest update (2) | 23 June 2020, 21:09:42 UTC |
| 890b8ec | RWCox | 23 June 2020, 18:11:49 UTC | tsv and csv file support into AFNI GUI | 23 June 2020, 18:11:49 UTC |
| 865d970 | mrneont | 23 June 2020, 02:41:46 UTC | @djunct_edgy_align_check: let -monty be useful | 23 June 2020, 02:41:46 UTC |
| 791b12e | mrneont | 22 June 2020, 16:36:09 UTC | convert_cdiflist.py: fix, col vecs now scaled by bvalue | 22 June 2020, 16:36:09 UTC |
| b4e27e1 | afni-discoraj | 22 June 2020, 06:29:14 UTC | update for @afni_R_package_install to move psych package to optional | 22 June 2020, 06:29:14 UTC |
| 185abb0 | afniHQ | 20 June 2020, 01:49:25 UTC | version update | 20 June 2020, 01:49:25 UTC |
| 5c5c37b | afni-gangc | 19 June 2020, 17:59:29 UTC | convert character columns to factors | 19 June 2020, 17:59:29 UTC |
| 6be3f25 | afni-gangc | 19 June 2020, 17:59:26 UTC | convert character columns to factors | 19 June 2020, 17:59:26 UTC |
| 2cdcdf7 | afni-gangc | 19 June 2020, 17:59:21 UTC | convert character columns to factors | 19 June 2020, 17:59:21 UTC |
| 8870996 | afni-gangc | 19 June 2020, 17:59:17 UTC | convert character columns to factors | 19 June 2020, 17:59:17 UTC |
