{"push_id":912648450,"size":4,"distinct_size":4,"ref":"refs/heads/subtree-update","head":"5db2d3c54e2248cb52ffb358c079526b46f4a2a4","before":"f57d17508c26ff4af8571892243d99cfd2696d65","commits":[{"sha":"c2dc4e6578df6c6580ce014a6852fc0f6d560d2f","author":{"email":"13b42ba530f44c8f7ad6fae1657d79de675ce8df@gmail.com","name":"Ben Cipollini"},"message":"Create README.md","distinct":true,"url":"https://api.github.com/repos/bcipolli/CallosalScaling/commits/c2dc4e6578df6c6580ce014a6852fc0f6d560d2f"},{"sha":"89cc8cb195f9057c8620bf362d8cf31136c3e637","author":{"email":"13b42ba530f44c8f7ad6fae1657d79de675ce8df@gmail.com","name":"Ben Cipollini"},"message":"Update README.md","distinct":true,"url":"https://api.github.com/repos/bcipolli/CallosalScaling/commits/89cc8cb195f9057c8620bf362d8cf31136c3e637"},{"sha":"e0c802cb43ef6e9af52816a5721c08453ae71634","author":{"email":"d609a2b063cf7ad0c57bdcf0d8979f051603a23f@ucsd.edu","name":"Ben Cipollini"},"message":"Squashed '_lib/' changes from a495a3e..9a42aa8\n\n9a42aa8 Merge pull request #5 from guruucsd/de\n1fe16a6 Merge branch 'master' into de\n1514fd6 Merge commit '703f3d602f65907fb913a69592938b6482226847'\nadada9c BF: p.Dec should always be > 0.\n1234956 BF: make guru_getopt case insensitive.\ncd800c0 BF: no model.Dec when dropout is set, since dropout gives false error increase.\n38bef21 ENH: relu (used for Kitterle)\neee6a0f STY: whitespace.\n07f8d89 STY: small code cleanup (remove unused code, rename variables)\n300c57b STY: rons => runs\n1253261 STY: clean up random scripts (unnecessary commments, over-indenting)\nbca8e41 STY: remove all variables named 'abc'\n4e49017 TST: assert on cross-entropy failure; likely using the wrong xfer function.\n460717a Merge remote-tracking branch 'upstream/master' into stacked\n66a6c3e BF: get the *last* option from guru_getopt\n9df1e30 ENH: multi-level backprop (note: dropout may not work properly)\n0ca19b3 STY: eliminate duplicate variable, make variable names consistent.\n075398f BF: arg tweaks (remove img2pol/LVF) to get old results.\n1752253 Bugfix\n5266b99 STY: remove \"`\" marks / convert to \"'\"\nd5e1d09 Bugfix\n455037e BF: fix error computation, and rename args so it hopefully won't happen again :(\n7217344 RF: remove 'linout' (it was deprecated).\n4bea0ca Create file that capitalizes first letter of str\nf4a0c53 Merge pull request #18 from bcipolli/octave-compat\n9958141 Merge pull request #5 from bcipolli/okubo_michimata_2002\n60a68ce anova1 => anovaSRV\n8a9ae7d Be more careful about how we retrieve the user info.\nec7561a Similar change for guru_pol2img\n86367ed Extend img2pol to work with 2D single images or a 3D matrix of images\n2995b0a Another step on the way to getting this to work.\na55d88a Remove conflicting (and unused) util files.\n87a3816 Wrap num2cell with octave-compatible code.\ncadc302 wrap mkdir in octave-compatible guru_mkdir\nfe45d04 Allow 2to1 frequency to take padfactor into account\ne4fc545 Tweaks to get 102x75 size case working.\n5d2ac2e Simplify Vishaal's contrast_balancing code\n8f5a8d2 Put contrast balancing of hierarchical letters into the lamb_yund_2000 directory.\nac7d7cc Reorganize / rename files.\n03e54c2 Prep for contrast balancing experiment.\n423e5d5 foof\n4a182c3 Adding plot for semilog with negative values.\nf9bef5d Tweaks for Octave compatibility.\n6a26c69 What I needed to get the code running again :)\n703f3d6 Merge pull request #4 from bcipolli/master\n638f915 Merge pull request #4 from bcipolli/master\n4fca055 exposing emo as emo/nn\ne780f07 exposing emo as emo/nn\n9615af0 Removing duplicate tvz / exgauss\n34f1775 Removing duplicate tvz / exgauss\n41b0b72 Exposing emo's code at the root.\nfeb1fb4 Exposing emo's code at the root.\n6e1cf6b removing bad emo branch\n55d0139 removing bad emo branch\ne55fbd0 Reorganizing files, removing duplicate functions.\n146c089 Reorganizing files, removing duplicate functions.\nb4e3067 Create README.md\nc2b0a53 Create README.md\n86f5471 Merge pull request #3 from bcipolli/ringo\n592bb35 Merge pull request #3 from bcipolli/ringo\n94d850c Merge branch 'master' of github.com:bcipolli/matlab-utils into ringo\n8e1b896 Merge branch 'master' of github.com:bcipolli/matlab-utils into ringo\nb32ec99 Merge pull request #2 from bcipolli/de\na6fe199 Merge pull request #2 from bcipolli/de\n520388b Merge branch 'master-update' of github.com:bcipolli/matlab-utils into master-update\n849c304 Merge branch 'master-update' of github.com:bcipolli/matlab-utils into master-update\n10df035 Merge branch 'master' into master-update\nfca3dc4 Merge branch 'master' into master-update\n5cc0af2 Merge pull request #1 from bcipolli/rinsel\ne3e035d Merge pull request #1 from bcipolli/rinsel\n437ce14 Final code tweaks.\n8c80010 Final code tweaks.\n899cf18 Tweak some figures for final output!\n3000792 Tweak some figures for final output!\n8bbfa77 Add dataset for examining words.\n008aecc Add dataset for examining words.\n705bf9b Small code improvements / cleanup.\nb806218 Small code improvements / cleanup.\nd973e68 Set up callback structure for analysis and plotting.\n337a1fa Set up callback structure for analysis and plotting.\n228f95d Better naming of unique output plots.\n0f1623d Better naming of unique output plots.\ne4c6fbc Hack for plot saving function, to properly size images when DISPLAY=0 (*nix)\ncef33f4 Hack for plot saving function, to properly size images when DISPLAY=0 (*nix)\n678de60 Updating to latest export_fig\n5b3337d Updating to latest export_fig\nd4366fe Save results to the proper subdirectory.\n60d6ca7 Save results to the proper subdirectory.\necb8e18 Removing `keyboard` (active and commented)\n75d5073 Removing `keyboard` (active and commented)\n6003ec2 Eliminate r_out_path (it was calling guru_getOutPath anyway); make output cache computation more simple.\nce49114 Eliminate r_out_path (it was calling guru_getOutPath anyway); make output cache computation more simple.\n6644805 r_printPats => r_print_pats\n671d7c8 r_printPats => r_print_pats\nfd4f1c6 Modify figure saving to use figure name, if available.\nc6da636 Modify figure saving to use figure name, if available.\nf8984df Reformulate training code to take advantage of parallelism,\n172b4d5 Reformulate training code to take advantage of parallelism,\ndc9a090 Cleanup\n669ba31 Cleanup\ncd633da tweaking code for reporting noise.\n95930bb tweaking code for reporting noise.\n86a33d4 Fix camel case bug.\n17a6006 Fix camel case bug.\n0673c91 More control over figure saving.\n9c208fb More control over figure saving.\nee77fc1 Small code tweaks and cleanup.\n0badf9c Small code tweaks and cleanup.\n42dc613 Final dissertation changes... LOCAL\nd654e89 Final dissertation changes... LOCAL\n34beea5 Final code for dissertation.\n54a2392 Final code for dissertation.\n2990504 Moving all library files.\nc8f54cb Moving all library files.\nac9ad89 Code cleanup for dissertation publication.\nbe60b76 Code cleanup for dissertation publication.\nfc3d3fb Change a label.\nfe666ed Change a label.\na93138e Fix labeling of positive / negative allometric offsets, add in linear offset option.\nce8b213 Fix labeling of positive / negative allometric offsets, add in linear offset option.\n5694e74 Add comparison to optimization procedure with offset.\ne387425 Add comparison to optimization procedure with offset.\n7df2b98 Add new analysis files, remove allometric_regress.\nacd4311 Add new analysis files, remove allometric_regress.\n144a62d Update fileparts with needed ... part :)\n25c4a3b Update fileparts with needed ... part :)\nbb077b0 Import _lib as a subtree into code\nf9ef16c Import _lib as a subtree into code\n7c2222d Merge commit '3ed3a831b56ac121c05ec403865eed994bfee60a' as '_lib'\nfba21ee Merge commit '80682eeedf61f44f82fb088cd12b121c885949bb' as '_lib'\n3ed3a83 Squashed '_lib/' content from commit a495a3e\n80682ee Squashed '_lib/' content from commit a495a3e\ndf932eb Use reduced major axis regression.\n2a3347d Use reduced major axis regression.\na7e6c5a Instead of computing residuals, compute r^2; have prediction algorithms print r^2\n164c3e1 Instead of computing residuals, compute r^2; have prediction algorithms print r^2\n117994c Linting, fixing small bugs.\n4ebe50b Linting, fixing small bugs.\ne7d93a6 Linting utility functions.\n7619c65 Linting utility functions.\n1a05777 Adding missing utility files.\n8ea257f Merge branch 'master' of github.com:bcipolli/CallosalScaling\nf7be3a9 Merge branch 'master' of github.com:bcipolli/CallosalScaling\n0c6d190 Merge commit 'ef2716c65a13cd151dff2b7f35de6711d5307ade' as '_lib/guru-utils'\nccb702b Merge commit 'ef2716c65a13cd151dff2b7f35de6711d5307ade' as '_lib/guru-utils'\naa61ed9 Removing IUBD so that we can add as a subtree\n8d3ffda Copying over files from the DifferentialEncoding repo; mostly linting changes.\nd22c4b9 Small fixes, adding IUBD distribution\nbea0e92 Moving files to have better project structure\n8abf47d Adding original data creation files, data, but no source images\n1d9f9d8 Create README.md\ne54bc66 Create README.md\nb12c113 Merge branch 'lewis_elman' of github.com:bcipolli/CorpusCallosum into develop\n0d2f6e3 Merge branch 'lewis_elman' of github.com:bcipolli/CorpusCallosum into develop\n4b9b825 Merge branch 'develop' of github.com:bcipolli/CorpusCallosum into develop\nc11c467 Merge branch 'develop' of github.com:bcipolli/CorpusCallosum into develop\n033b2df Merge branch 'growing' into develop\nc74c005 Merge branch 'growing' into develop\n94d1ccd Merge pull request #2 from bcipolli/develop2\nf62faaa Merge pull request #2 from bcipolli/develop2\ncd633cd Merge pull request #1 from bcipolli/lewis_elman2\n2d17d6e moving things around, stuff based on rilling needs\n30debda Merge branch 'evolution' of guru.ucsd.edu:~/CorpusCallosum into evolution\n2ff7142 Merge branch 'evolution' of guru.ucsd.edu:~/CorpusCallosum into evolution\n4f466cc lots of changes for COGSCI\nfe102eb lots of changes for COGSCI\n075d9be Merge branch 'evolution' of guru.ucsd.edu:~/CorpusCallosum into evolution\ndb88a59 Merge branch 'evolution' of guru.ucsd.edu:~/CorpusCallosum into evolution\n3b38f7e generalization for making cache file\n0662e33 generalization for making cache file\nd7787d9 difference in ringo plot from 100% performance\n86e0867 difference in ringo plot from 100% performance\n07232b4 updating analysis scripts\n89484ea updating analysis scripts\n2154ac5 moving files, making plotting function (not script), renaming to load_cache_file for more consistent naming\n903d16c moving files, making plotting function (not script), renaming to load_cache_file for more consistent naming\na631da7 fixing bugs from caching mods\nebd6868 fixing bugs from caching mods\n88afee1 Merge branch 'evolution' of guru.ucsd.edu:~/CorpusCallosum into evolution\nb5cea3d Merge branch 'evolution' of guru.ucsd.edu:~/CorpusCallosum into evolution\na10dc97 Xmaking better use of parallel\n7c0d18c Xmaking better use of parallel\n76b5a9b Xmaking better use of parallel\n506e7f6 Xmaking better use of parallel\nd5f0361 make caching smoother and easier, make r_looper parallelizable\n307104e make caching smoother and easier, make r_looper parallelizable\n8ca494f making lewis_elman patterns master; use common looping code\ndde8721 making lewis_elman patterns master; use common looping code\nb84612e adding human and chimp\n8f42a58 moving things around, documenting functions for Panqu\n8a97ea2 moving scripts for training with developmental noise trajectory\n8bd7427 moving scripts for training with developmental noise trajectory\ne1b647b wqMerge branch 'evolution' of guru.ucsd.edu:~/CorpusCallosum into evolution\nabfa608 wqMerge branch 'evolution' of guru.ucsd.edu:~/CorpusCallosum into evolution\nbf2008b small changes to make things more robust\nb439633 small changes to make things more robust\n49be56b making (a)symmetric input / (a)symmetric output have intra/inter patterns by running everything through an expanded lewis_elman pattern system.  Moving around other code, general cleanup.\nb5f6972 making (a)symmetric input / (a)symmetric output have intra/inter patterns by running everything through an expanded lewis_elman pattern system.  Moving around other code, general cleanup.\nddd1842 first checkin; ben's libraries\n1b1ab56 latest\n13e1470 latest\ned486bf fixed COGSCI and TDLC scripts\nda19acf fixed COGSCI and TDLC scripts\n5e7c49f setting proper directories for current structure, fishing out proper cogsci plots\n7cf3234 setting proper directories for current structure, fishing out proper cogsci plots\nb411fed migrating to new, integrated directory system\nddceb38 migrating to new, integrated directory system\n138710f moving lib files to lib repository\na5088d6 moving lib files to lib repository\nc4d1351 use more flexible caching method\na4c151f use more flexible caching method\n0ea0f9e mkae scripts for 5 hu go\\!\n6a7b08b mkae scripts for 5 hu go\\!\n25e62c3 updates to make it more flexible\ndd01501 updates to make it more flexible\n70f8133 fix it\nc26c405 fix it\n33bee87 fixing looping, make small download for analysis\n3833903 fixing looping, make small download for analysis\n0cd01a0 more moving around things\nb0abe6c more moving around things\n77a937c Merge branch 'evolution' of guru.ucsd.edu:~/CorpusCallosum into evolution\n59b8cdb updating looping script, to stop tweaking the random seeds\n2ff11ac moving files around, trying to make settings more generic, like DE\n55b4d9c moving around files\n1a0165c Merge remote-tracking branch 'origin/TDLC2013' into evolution\nb54ba5b Merge remote-tracking branch 'origin/COGSCI2013' into evolution\nafb3008 Merge remote-tracking branch 'origin/COGSCI2013' into evolution\n09173d6 figures for TDLC poster\n50b53c4 Merge branch 'COGSCI2013' of guru.ucsd.edu:~/CorpusCallosum into COGSCI2013\nbb9a295 final updates for COGSCI2013\n93cc783 enabling symmetric/asymmetric experiments\n42faf41 big big checkin, experiments and mods, including pattern additions\\!\n61798db adding binary files\n92b2ee4 final changes for COGSCI 2013\n5b3dec4 get per-hemisphere stats when breaking.  shows that ringo has IH transfer via output convergence\n25ca7df Merge branch 'COGSCI2013' of guru.ucsd.edu:~/CorpusCallosum into COGSCI2013\n351e365 implemented cross-entropy error, but with tanh (not softmax) output units\n6e8c89f implemented cross-entropy error, but with tanh (not softmax) output units\n4e324f9 getting simulations to run with 'axon_noise' option\n0e39bb0 who knows\n967a603 gitignore\n3087d04 initial submission\n\ngit-subtree-dir: _lib\ngit-subtree-split: 9a42aa8f1aa5334992b30bb3d84d8b5fc4662e84","distinct":true,"url":"https://api.github.com/repos/bcipolli/CallosalScaling/commits/e0c802cb43ef6e9af52816a5721c08453ae71634"},{"sha":"5db2d3c54e2248cb52ffb358c079526b46f4a2a4","author":{"email":"d609a2b063cf7ad0c57bdcf0d8979f051603a23f@ucsd.edu","name":"Ben Cipollini"},"message":"Merge commit 'e0c802cb43ef6e9af52816a5721c08453ae71634'","distinct":true,"url":"https://api.github.com/repos/bcipolli/CallosalScaling/commits/5db2d3c54e2248cb52ffb358c079526b46f4a2a4"}]}