-
Notifications
You must be signed in to change notification settings - Fork 1
Commit
This commit does not belong to any branch on this repository, and may belong to a fork outside of the repository.
Merge pull request #18 from Neural-Systems-at-UIO/development
Changed the flat map to segmentation scaling method
- Loading branch information
Showing
28 changed files
with
31 additions
and
11 deletions.
There are no files selected for viewing
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -1,8 +1,8 @@ | ||
{ "volume_path": "allen2017", | ||
"label_path": "PyNutil/annotation_volumes/allen2017_colours.csv", | ||
"segmentation_folder": "PyNutil/test_data/PyTest_seg", | ||
"alignment_json": "PyNutil/test_data/PyNutil_testdataset_Nonlin_SY_fixed.json", | ||
"alignment_json": "PyNutil/test_data/PyNutil_testdataset_Nonlin_SY_fixed_bigcaudoputamen.json", | ||
"nonlinear": true, | ||
"colour": [0, 0, 0], | ||
"points_json_path": "PyNutil/outputs/test8_PyNutil.json" | ||
"points_json_path": "PyNutil/outputs/test8_PyNutil_use_flat.json" | ||
} |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
6 changes: 6 additions & 0 deletions
6
test_data/PyNutil_testdataset_Nonlin_SY_fixed_bigcaudoputamen.json
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -0,0 +1,6 @@ | ||
{"name":"PyNutil_testdataset","target":"ABA_Mouse_CCFv3_2017_25um.cutlas","target-resolution":[456.0, 528.0, 320.0],"slices":[ | ||
{"filename":"test_s001.png","nr":1,"width":1500,"height":1000,"anchoring":[-5.145275115966797, 361.8014440433213, 331.1490739071843, 456.0, 0.0, 0.0, 0.0, 0.0, -320.0],"markers":[[675.1336898395723, 571.1229946524063, 675.1336898395722, 571.1229946524064], [862.2994652406418, 587.1657754010693, 862.2994652406417, 587.1657754010695], [462.29946524064167, 485.5614973262032, 232.3529411764706, 320.8556149732621], [462.2618138532621, 686.9522625381479, 205.6149732620321, 932.6203208556149], [1065.5080213903743, 479.1443850267384, 1305.0802139037437, 259.89304812834223], [874.0684663788843, 528.257146231987, 832.3529411764705, 360.4278074866309], [1076.6584104086885, 691.7768773152915, 1329.6791443850263, 922.9946524064171]]}, | ||
{"filename":"test_s002.png","nr":2,"width":1500,"height":1000,"anchoring":[-3.8589563369750977, 318.7157039711191, 340.24552914037605, 456.0, 0.0, 0.0, 0.0, 0.0, -320.0],"markers":[[636.8098159509204, 603.4958601655935, 672.6993865030674, 593.3762649494021], [902.9868982011025, 615.5567336628567, 843.8650306748466, 610.8555657773691], [561.2609204260139, 750.3661510917975, 558.5889570552147, 775.5289788408462]]}, | ||
{"filename":"test_s003.png","nr":3,"width":1500,"height":1000,"anchoring":[-2.8942172527313232, 275.6299638989171, 350.0189942541106, 456.0, 0.0, 0.0, 0.0, 0.0, -320.0],"markers":[[761.0429447852762, 629.2548298068077, 761.0429447852761, 629.2548298068077], [204.29447852760745, 613.6154553817848, 365.3374233128834, 612.695492180313], [482.6376861494953, 714.9876920193675, 623.0061349693251, 747.0101195952162], [434.00208292806684, 606.7676930120547, 578.8343558282207, 601.6559337626494], [959.8159509202455, 636.6145354185834, 980.0613496932516, 628.3348666053357], [957.8161415293836, 523.3987679117937, 953.3742331288344, 547.3781048758049]]}, | ||
{"filename":"test_s004.png","nr":4,"width":1500,"height":1000,"anchoring":[-3.0282087922096252, 232.54422382671487, 364.1366059225139, 456.0, 0.0, 0.0, 0.0, 0.0, -320.0],"markers":[[522.6993865030674, 712.9714811407543, 530.6338374725239, 715.7313707451705], [630.6438500513034, 523.1833943062713, 550.3067484662577, 519.7792088316469], [916.4047791164191, 534.1886045162021, 962.5766871165645, 523.4590616375344], [950.8076359295408, 705.46368100121, 949.6932515337423, 701.0119595216191], [1096.1208774051677, 649.3153717520049, 1099.6932515337426, 656.8537258509658], [1030.2378410339393, 594.2011916220456, 1065.644171779141, 604.4158233670653]]}, | ||
{"filename":"test_s005.png","nr":5,"width":1500,"height":1000,"anchoring":[-0.6163610816001892, 189.45848375451277, 374.2485759765199, 456.0, 0.0, 0.0, 0.0, 0.0, -320.0],"markers":[[6.441717791411037, 588.7764489420423, 186.80981595092024, 425.0229990800368], [766.3836793259812, 987.3315412211099, 834.6625766871166, 946.6421343146276], [447.4522362685242, 740.6361518118404, 565.9509202453987, 643.0542778288868], [392.2943778764543, 594.4761834437141, 542.9447852760735, 478.3808647654094], [1117.436664514756, 564.5422630203066, 788.6503067484659, 422.2631094756209], [1045.7025247722827, 975.3508578153971, 893.5582822085888, 873.045078196872]]}]} |
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -0,0 +1,6 @@ | ||
snr name segmented changed stable% | ||
1 test_s001.png 108266 95135 12% | ||
2 test_s002.png 83702 34124 59% | ||
3 test_s003.png 93593 67152 28% | ||
4 test_s004.png 97022 44431 54% | ||
5 test_s005.png 92810 90411 2% |
Binary file not shown.
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
Binary file not shown.
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
Binary file not shown.
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
Binary file not shown.
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
Binary file not shown.
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
Binary file not shown.
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.
Loading
Sorry, something went wrong. Reload?
Sorry, we cannot display this file.
Sorry, this file is invalid so it cannot be displayed.