mipav.git
18 months agoIn WPROD changed W0[K] to W0[K-1] and W1[K] to W1[K-1].
ilb@NIH.GOV [Tue, 28 Nov 2017 17:28:10 +0000 (17:28 +0000)]
In WPROD changed W0[K] to W0[K-1] and W1[K] to W1[K-1].

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15277 ba61647d-9d00-f842-95cd-605cb4296b96

18 months agoPorting continues.
ilb@NIH.GOV [Mon, 27 Nov 2017 21:58:53 +0000 (21:58 +0000)]
Porting continues.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15276 ba61647d-9d00-f842-95cd-605cb4296b96

18 months agoAdded tabbed panes and additional tooltips
mcmatt@NIH.GOV [Sun, 26 Nov 2017 15:22:59 +0000 (15:22 +0000)]
Added tabbed panes and additional tooltips

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15275 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoPorting continues.
ilb@NIH.GOV [Fri, 24 Nov 2017 23:14:23 +0000 (23:14 +0000)]
Porting continues.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15274 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoremoved many accessors to MIPAV utilities
mcmatt@NIH.GOV [Thu, 23 Nov 2017 16:23:42 +0000 (16:23 +0000)]
removed many accessors to MIPAV utilities

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15273 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoPorting continues.
ilb@NIH.GOV [Wed, 22 Nov 2017 23:13:09 +0000 (23:13 +0000)]
Porting continues.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15272 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoFixed error in annotation display when moving to the next image. Cleaned up code...
abokinsky [Wed, 22 Nov 2017 16:37:03 +0000 (16:37 +0000)]
Fixed error in annotation display when moving to the next image. Cleaned up code and added comments.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15271 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoBuilt dialog for loading source data elements from CSV file.
mcmatt@NIH.GOV [Tue, 21 Nov 2017 23:28:40 +0000 (23:28 +0000)]
Built dialog for loading source data elements from CSV file.
Also cleaned up unused code

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15270 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoAdded table display and editing of annotation positions for the tracking plugin.
abokinsky [Tue, 21 Nov 2017 22:45:05 +0000 (22:45 +0000)]
Added table display and editing of annotation positions for the tracking plugin.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15269 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoPorting continues.
ilb@NIH.GOV [Tue, 21 Nov 2017 20:34:43 +0000 (20:34 +0000)]
Porting continues.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15268 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoPorting continuues.
ilb@NIH.GOV [Mon, 20 Nov 2017 23:12:47 +0000 (23:12 +0000)]
Porting continuues.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15267 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoStarting work on building source data elements dialog
mcmatt@NIH.GOV [Mon, 20 Nov 2017 22:56:13 +0000 (22:56 +0000)]
Starting work on building source data elements dialog

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15266 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoAdded hyperstacks to the tracking annotations plugin so it's easier to go back and...
abokinsky [Mon, 20 Nov 2017 18:05:18 +0000 (18:05 +0000)]
Added hyperstacks to the tracking annotations plugin so it's easier to go back and forth between images. Saves and restores LUTs for each image so images look the same. Loads and saves annotations in progress to files and allows user changes to annotations for easier comparisons and tracking changes between images. Works for both single and two-channel worm images.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15265 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoMore updates
mcmatt@NIH.GOV [Sun, 19 Nov 2017 19:57:46 +0000 (19:57 +0000)]
More updates

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15264 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoPorting continues.
ilb@NIH.GOV [Fri, 17 Nov 2017 23:10:35 +0000 (23:10 +0000)]
Porting continues.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15263 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoPorting code.
ilb@NIH.GOV [Thu, 16 Nov 2017 22:22:57 +0000 (22:22 +0000)]
Porting code.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15262 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoUpdated copyright notices with info on jars moved from bundled JREs to native lib...
mccreedy@NIH.GOV [Thu, 16 Nov 2017 21:54:09 +0000 (21:54 +0000)]
Updated copyright notices with info on jars moved from bundled JREs to native lib jars.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15261 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoMore update to phase one.
mcmatt@NIH.GOV [Thu, 16 Nov 2017 19:15:03 +0000 (19:15 +0000)]
More update to phase one.
Starting write code to load source CSV file.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15260 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoStarting work on.
ilb@NIH.GOV [Wed, 15 Nov 2017 23:03:56 +0000 (23:03 +0000)]
Starting work on.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15259 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoAdded error displays for debugging the annotation plugin csv file loading. Added...
abokinsky [Wed, 15 Nov 2017 21:12:36 +0000 (21:12 +0000)]
Added error displays for debugging the annotation plugin csv file loading. Added reseting the viewing axis in the -X direction.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15258 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoPrep for version 8.0.0
mccreedy@NIH.GOV [Wed, 15 Nov 2017 15:47:22 +0000 (15:47 +0000)]
Prep for version 8.0.0

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15257 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoPrep for version 8.0.0
mccreedy@NIH.GOV [Wed, 15 Nov 2017 15:46:34 +0000 (15:46 +0000)]
Prep for version 8.0.0

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15256 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoChanged classpath dir var to point to new JRE symlink
mccreedy@NIH.GOV [Wed, 15 Nov 2017 15:46:01 +0000 (15:46 +0000)]
Changed classpath dir var to point to new JRE symlink

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15255 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoNew system for extracting/loading native libs instead of injecting them into the...
mccreedy@NIH.GOV [Wed, 15 Nov 2017 15:35:58 +0000 (15:35 +0000)]
New system for extracting/loading native libs instead of injecting them into the JRE.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15254 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoContinued updates
mcmatt@NIH.GOV [Tue, 14 Nov 2017 23:28:38 +0000 (23:28 +0000)]
Continued updates

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15253 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agotestStripmap1() plot okay. Plots are identical to Figure 4.6 except for 2 extra...
ilb@NIH.GOV [Tue, 14 Nov 2017 22:17:02 +0000 (22:17 +0000)]
testStripmap1() plot okay.  Plots are identical to Figure 4.6 except for 2 extra lines from plotpoly.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15252 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agostderiv, stquad, stquadh, hpmap, and hpquad removed and called in SchwarzChristoffelM...
ilb@NIH.GOV [Tue, 14 Nov 2017 20:09:50 +0000 (20:09 +0000)]
stderiv, stquad, stquadh, hpmap, and hpquad removed and called in SchwarzChristoffelMapping instead.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15251 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agostderiv version with complex c replaces version with real c. stderiv, stquad,
ilb@NIH.GOV [Tue, 14 Nov 2017 20:08:23 +0000 (20:08 +0000)]
stderiv version with complex c replaces version with real c.  stderiv, stquad,
stquadh, hpmap, and hpquad now called by SchwarzChristoffelMapping2.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15250 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoInverse mapping test works in testStripmap2().
ilb@NIH.GOV [Tue, 14 Nov 2017 19:04:32 +0000 (19:04 +0000)]
Inverse mapping test works in testStripmap2().

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15249 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoAdded missing scmap call to scimapz0.
ilb@NIH.GOV [Tue, 14 Nov 2017 19:03:59 +0000 (19:03 +0000)]
Added missing scmap call to scimapz0.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15248 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoForward mapping working in testStripmap2().
ilb@NIH.GOV [Tue, 14 Nov 2017 16:02:34 +0000 (16:02 +0000)]
Forward mapping working in testStripmap2().

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15247 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoWorking on stmap.
ilb@NIH.GOV [Mon, 13 Nov 2017 23:12:13 +0000 (23:12 +0000)]
Working on stmap.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15246 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoIn sccaddvts further correction of setting ang.
ilb@NIH.GOV [Mon, 13 Nov 2017 21:31:10 +0000 (21:31 +0000)]
In sccaddvts further correction of setting ang.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15245 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoCorrected z1 calculation in stparam. In testStripmap1() by using NESolve instead...
ilb@NIH.GOV [Mon, 13 Nov 2017 20:55:32 +0000 (20:55 +0000)]
Corrected z1 calculation in stparam.  In testStripmap1() by using NESolve instead of NLConstrainedEngine or NL2sol achieved strip accuracy = 7.1E-9 for f1 and strip accuracy = 6.1E-9 for f2.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15244 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoRemoved println in sccadvtx.
ilb@NIH.GOV [Mon, 13 Nov 2017 20:17:20 +0000 (20:17 +0000)]
Removed println in sccadvtx.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15243 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoIn sccaddvtx corrected setting of ang.
ilb@NIH.GOV [Mon, 13 Nov 2017 20:15:18 +0000 (20:15 +0000)]
In sccaddvtx corrected setting of ang.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15242 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoAdded getParameters(), getExitStatus(), and printExitStatus(int).
ilb@NIH.GOV [Mon, 13 Nov 2017 18:41:35 +0000 (18:41 +0000)]
Added getParameters(), getExitStatus(), and printExitStatus(int).

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15241 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoSpelling correction.
ilb@NIH.GOV [Mon, 13 Nov 2017 16:26:13 +0000 (16:26 +0000)]
Spelling correction.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15240 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoPhase 1 mostly complete
mcmatt@NIH.GOV [Sun, 12 Nov 2017 15:17:35 +0000 (15:17 +0000)]
Phase 1 mostly complete

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15239 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoAdded exteriorevalinv. Inverse mapping test passed in testExtermap2().
ilb@NIH.GOV [Thu, 9 Nov 2017 22:56:59 +0000 (22:56 +0000)]
Added exteriorevalinv.  Inverse mapping test passed in testExtermap2().

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15238 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoWorked on testHplmap2(). Still not working.
ilb@NIH.GOV [Thu, 9 Nov 2017 21:34:51 +0000 (21:34 +0000)]
Worked on testHplmap2().  Still not working.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15237 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoForward and inverse transformations work in testHplmap3().
ilb@NIH.GOV [Thu, 9 Nov 2017 17:57:22 +0000 (17:57 +0000)]
Forward and inverse transformations work in testHplmap3().

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15236 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoteswtDiskmap4() now works. A figure like Figure 4.16 in Schwarz-Christoffel Mapping...
ilb@NIH.GOV [Thu, 9 Nov 2017 17:06:14 +0000 (17:06 +0000)]
teswtDiskmap4() now works.  A figure like Figure 4.16 in Schwarz-Christoffel Mapping results.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15235 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoMore updates to mapper
mcmatt@NIH.GOV [Wed, 8 Nov 2017 23:34:03 +0000 (23:34 +0000)]
More updates to mapper

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15234 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoWorking on testDiskmap4().
ilb@NIH.GOV [Wed, 8 Nov 2017 23:13:41 +0000 (23:13 +0000)]
Working on testDiskmap4().

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15233 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoCorrected setting of beta in crdsikevalinv. testCRDiskmap1() and testCRDiskmap7...
ilb@NIH.GOV [Wed, 8 Nov 2017 21:33:27 +0000 (21:33 +0000)]
Corrected setting of beta in crdsikevalinv.  testCRDiskmap1() and testCRDiskmap7() now work properly.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15232 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoWorking on debugging crdisk.
ilb@NIH.GOV [Tue, 7 Nov 2017 22:28:23 +0000 (22:28 +0000)]
Working on debugging crdisk.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15231 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoAdded additional sites to PDBP list.
mccreedy@NIH.GOV [Tue, 7 Nov 2017 19:45:03 +0000 (19:45 +0000)]
Added additional sites to PDBP list.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15230 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoCleanup continues
mcmatt@NIH.GOV [Tue, 7 Nov 2017 15:15:35 +0000 (15:15 +0000)]
Cleanup continues

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15229 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoForward mapping part of testExtermap2() works. Need to add inverse mapping code...
ilb@NIH.GOV [Mon, 6 Nov 2017 21:19:50 +0000 (21:19 +0000)]
Forward mapping part of testExtermap2() works.  Need to add inverse mapping code to implement rest of testExtermap2().

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15228 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoCorrected while loop in Newton iterations section of rinvmap. testRectmap3() is...
ilb@NIH.GOV [Mon, 6 Nov 2017 20:35:26 +0000 (20:35 +0000)]
Corrected while loop in Newton iterations section of rinvmap.  testRectmap3() is now working.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15227 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoChanged 1 expected result number.
ilb@NIH.GOV [Fri, 3 Nov 2017 22:11:17 +0000 (22:11 +0000)]
Changed 1 expected result number.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15226 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoAdded testDiskmap7().
ilb@NIH.GOV [Fri, 3 Nov 2017 22:07:39 +0000 (22:07 +0000)]
Added testDiskmap7().

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15225 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoReplaced displayWarning with System.err.println.
ilb@NIH.GOV [Fri, 3 Nov 2017 18:24:56 +0000 (18:24 +0000)]
Replaced displayWarning with System.err.println.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15224 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoCorrected zs initialization in stpfunEP fitToFunction and sum initialization in stder...
ilb@NIH.GOV [Fri, 3 Nov 2017 17:56:28 +0000 (17:56 +0000)]
Corrected zs initialization in stpfunEP fitToFunction and sum initialization in stderivEP.  Too many severe crowding messages seen in fitToFunction and too long a run.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15223 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoIf the atan argument is <= 1.0E-7 away from -1, just return -PI/4 instead of going...
ilb@NIH.GOV [Fri, 3 Nov 2017 17:41:59 +0000 (17:41 +0000)]
If the atan argument is <= 1.0E-7 away from -1, just return -PI/4 instead of going into a loop for calculation which will take a very long time or not return at all.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15222 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoreenabled annotation animation
abokinsky [Thu, 2 Nov 2017 21:04:17 +0000 (21:04 +0000)]
reenabled annotation animation

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15221 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoNew files to support BRICS mapping tool
mcmatt@NIH.GOV [Thu, 2 Nov 2017 14:36:35 +0000 (14:36 +0000)]
New files to support BRICS mapping tool

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15220 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoWorking on stpfunEP using NLConstrainedEngineEP.
ilb@NIH.GOV [Wed, 1 Nov 2017 22:15:35 +0000 (22:15 +0000)]
Working on stpfunEP using NLConstrainedEngineEP.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15219 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoatan2 function added.
ilb@NIH.GOV [Wed, 1 Nov 2017 18:56:56 +0000 (18:56 +0000)]
atan2 function added.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15218 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoAdded option for stparam to use NL2sol instead of NLConstrainedEngine, but this did...
ilb@NIH.GOV [Tue, 31 Oct 2017 22:03:31 +0000 (22:03 +0000)]
Added option for stparam to use NL2sol instead of NLConstrainedEngine, but this did not converge properly either.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15217 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agostpfun calculates the same residuals in MIPAV and MATLAB, but MATLAB converges while...
ilb@NIH.GOV [Tue, 31 Oct 2017 19:22:04 +0000 (19:22 +0000)]
stpfun calculates the same residuals in MIPAV and MATLAB, but MATLAB converges while NLConstrainedEngine does not.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15216 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoDebugging stripmap.
ilb@NIH.GOV [Mon, 30 Oct 2017 22:20:50 +0000 (22:20 +0000)]
Debugging stripmap.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15215 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoDebugging stripmap.
ilb@NIH.GOV [Fri, 27 Oct 2017 22:17:14 +0000 (22:17 +0000)]
Debugging stripmap.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15214 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoImproved fit of distance map calculation during untwisting.
abokinsky [Fri, 27 Oct 2017 16:25:38 +0000 (16:25 +0000)]
Improved fit of distance map calculation during untwisting.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15213 ba61647d-9d00-f842-95cd-605cb4296b96

19 months agoPorting stripmap.
ilb@NIH.GOV [Thu, 26 Oct 2017 22:12:39 +0000 (22:12 +0000)]
Porting stripmap.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15212 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoIf an Illegal Argument Exception occurs on Arrays.sort, then sort on slice number...
ilb@NIH.GOV [Thu, 26 Oct 2017 17:15:12 +0000 (17:15 +0000)]
If an Illegal Argument Exception occurs on Arrays.sort, then sort on slice number following final underline in name.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15211 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoPorting stripmap.
ilb@NIH.GOV [Wed, 25 Oct 2017 22:18:02 +0000 (22:18 +0000)]
Porting stripmap.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15210 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoChanged sign from private to public.
ilb@NIH.GOV [Wed, 25 Oct 2017 21:31:34 +0000 (21:31 +0000)]
Changed sign from private to public.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15209 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoChanged scselect from private to public.
ilb@NIH.GOV [Wed, 25 Oct 2017 18:03:55 +0000 (18:03 +0000)]
Changed scselect from private to public.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15208 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoIn scfix for type == "st" corrected auxn code.
ilb@NIH.GOV [Wed, 25 Oct 2017 17:02:52 +0000 (17:02 +0000)]
In scfix for type == "st" corrected auxn code.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15207 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoAnother comment in testHplmap2().
ilb@NIH.GOV [Tue, 24 Oct 2017 19:14:46 +0000 (19:14 +0000)]
Another comment in testHplmap2().

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15206 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoCorrection of z z0 generation in hpinvmap and comments about problems in testHplmap2().
ilb@NIH.GOV [Tue, 24 Oct 2017 18:48:12 +0000 (18:48 +0000)]
Correction of z z0 generation in hpinvmap and comments about problems in testHplmap2().

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15205 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoWorking on testHplmap2().
ilb@NIH.GOV [Mon, 23 Oct 2017 22:16:16 +0000 (22:16 +0000)]
Working on testHplmap2().

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15204 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoAdded hpmap and hpquad.
ilb@NIH.GOV [Mon, 23 Oct 2017 21:35:12 +0000 (21:35 +0000)]
Added hpmap and hpquad.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15203 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoChanged scimapz0 from private to public.
ilb@NIH.GOV [Mon, 23 Oct 2017 18:17:39 +0000 (18:17 +0000)]
Changed scimapz0 from private to public.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15202 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoWorking on hpinvmap.
ilb@NIH.GOV [Mon, 23 Oct 2017 18:04:32 +0000 (18:04 +0000)]
Working on hpinvmap.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15201 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoIn scimapz0 filled in else if (from_hp) section.
ilb@NIH.GOV [Mon, 23 Oct 2017 18:02:08 +0000 (18:02 +0000)]
In scimapz0 filled in else if (from_hp) section.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15200 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoFinished testHplmap1(). f2 accuracy = 1.403E-9 in testHplmap2().
ilb@NIH.GOV [Fri, 20 Oct 2017 22:16:00 +0000 (22:16 +0000)]
Finished testHplmap1().  f2 accuracy = 1.403E-9 in testHplmap2().

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15199 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoexterplot now has double axis[] as an input parameter.
ilb@NIH.GOV [Fri, 20 Oct 2017 16:20:53 +0000 (16:20 +0000)]
exterplot now has double axis[] as an input parameter.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15198 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoExcept for 1 extra line testHplmap1() looks like textbook plot.
ilb@NIH.GOV [Thu, 19 Oct 2017 21:09:22 +0000 (21:09 +0000)]
Except for 1 extra line testHplmap1() looks like textbook plot.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15197 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoCan pass double axis[] parameter to plotpoly.
ilb@NIH.GOV [Thu, 19 Oct 2017 21:08:43 +0000 (21:08 +0000)]
Can pass double axis[] parameter to plotpoly.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15196 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoAdded hpplot.
ilb@NIH.GOV [Thu, 19 Oct 2017 18:04:51 +0000 (18:04 +0000)]
Added hpplot.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15195 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoAdded boolean closed input parameter to plotpoly and changed scpadapt from private...
ilb@NIH.GOV [Thu, 19 Oct 2017 18:03:57 +0000 (18:03 +0000)]
Added boolean closed input parameter to plotpoly and changed scpadapt from private to public.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15194 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agofixed bug with editing lattice markers.
abokinsky [Thu, 19 Oct 2017 15:56:38 +0000 (15:56 +0000)]
fixed bug with editing lattice markers.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15193 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoWorking on hpplot.
ilb@NIH.GOV [Wed, 18 Oct 2017 22:13:36 +0000 (22:13 +0000)]
Working on hpplot.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15192 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoChanged plotpoly from private to public.
ilb@NIH.GOV [Wed, 18 Oct 2017 22:13:13 +0000 (22:13 +0000)]
Changed plotpoly from private to public.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15191 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agotestHplmap1() has accuracy = 2.134E-12 and testHplmap2() has accuracy = 4.767E-10...
ilb@NIH.GOV [Wed, 18 Oct 2017 20:09:59 +0000 (20:09 +0000)]
testHplmap1() has accuracy = 2.134E-12 and testHplmap2() has accuracy = 4.767E-10.  Now work on plotting.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15190 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoStarted work on.
ilb@NIH.GOV [Tue, 17 Oct 2017 22:14:10 +0000 (22:14 +0000)]
Started work on.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15189 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoAdded setEps and changed private functions to public functions.
ilb@NIH.GOV [Tue, 17 Oct 2017 22:13:42 +0000 (22:13 +0000)]
Added setEps and changed private functions to public functions.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15188 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoComments added to testCRDiskmap3().
ilb@NIH.GOV [Tue, 17 Oct 2017 15:20:46 +0000 (15:20 +0000)]
Comments added to testCRDiskmap3().

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15187 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoAdded checkbox for cross-ratio representation.
ilb@NIH.GOV [Mon, 16 Oct 2017 21:11:09 +0000 (21:11 +0000)]
Added checkbox for cross-ratio representation.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15186 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoAdded runCrossRatioPolygonToRectangle().
ilb@NIH.GOV [Mon, 16 Oct 2017 21:09:41 +0000 (21:09 +0000)]
Added runCrossRatioPolygonToRectangle().

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15185 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agotestCRRectmap2() works.
ilb@NIH.GOV [Mon, 16 Oct 2017 18:47:37 +0000 (18:47 +0000)]
testCRRectmap2() works.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15184 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoCorrected setting of idx2 in crrmap. testCRRectamp1() works.
ilb@NIH.GOV [Mon, 16 Oct 2017 18:21:01 +0000 (18:21 +0000)]
Corrected setting of idx2 in crrmap.  testCRRectamp1() works.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15183 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoCorrected setting of interior in isinpoly and isinpoly2.
ilb@NIH.GOV [Fri, 13 Oct 2017 22:28:11 +0000 (22:28 +0000)]
Corrected setting of interior in isinpoly and isinpoly2.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15182 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoAdded save for 'undo' 'redo' feature for annotations.
abokinsky [Fri, 13 Oct 2017 16:27:54 +0000 (16:27 +0000)]
Added save for 'undo' 'redo' feature for annotations.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15181 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoFixed edit lattice user interface so the last-edited lattice is presented to the...
abokinsky [Thu, 12 Oct 2017 13:27:51 +0000 (13:27 +0000)]
Fixed edit lattice user interface so the last-edited lattice is presented to the user.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15180 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoIn readDicom if 0020,0032 Image Position and 0020,0037 Image Orientation are present...
ilb@NIH.GOV [Tue, 10 Oct 2017 21:00:20 +0000 (21:00 +0000)]
In readDicom if 0020,0032 Image Position and 0020,0037 Image Orientation are present, use them to determine z resolution rather than 0018,0088 Spacing Between Slices or 0018,0050 Slice Thickness in accordance with David Clunie's instructions.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15179 ba61647d-9d00-f842-95cd-605cb4296b96

20 months agoAdded UNC to list of PDBP sites.
mccreedy@NIH.GOV [Tue, 10 Oct 2017 18:17:11 +0000 (18:17 +0000)]
Added UNC to list of PDBP sites.

git-svn-id: https://citdcbmipav.cit.nih.gov/repos-pub/mipav/trunk@15178 ba61647d-9d00-f842-95cd-605cb4296b96