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  1. commit e6d5dcd167113e96d07ce345b2a28543281ed8ae
  2. Author: DhrubajyotiDas <ddas328@gmail.com>
  3. Date: Wed Nov 25 00:03:29 2015 -0500
  4.  
  5. Main implementation of asymmetric case.
  6.  
  7. commit 06b7981552c34724bc2f7705c7dee1e6b11ac148
  8. Author: DhrubajyotiDas <ddas328@gmail.com>
  9. Date: Wed Nov 25 00:03:08 2015 -0500
  10.  
  11. Adding helper functions for asymmetric cases
  12.  
  13. commit c2fe87d8a5b603b5d01514a3d034c21b396943ad
  14. Author: DhrubajyotiDas <ddas328@gmail.com>
  15. Date: Tue Nov 24 23:59:29 2015 -0500
  16.  
  17. Explicit statement of no Tikhonov regularization
  18.  
  19. commit 5941244967aaa084618f909ef8feaf748ff25567
  20. Author: DhrubajyotiDas <ddas328@gmail.com>
  21. Date: Tue Nov 24 23:57:46 2015 -0500
  22.  
  23. Converting 'n' into a list to handle rectangular cases
  24.  
  25. commit ced4ed032868ce21e00318f5a181d8cb4e2fbd85
  26. Author: DhrubajyotiDas <ddas328@gmail.com>
  27. Date: Tue Nov 24 22:06:14 2015 -0500
  28.  
  29. Removed incorrect valuerror flag.
  30.  
  31. commit 245c5220a22ccb2dd385004cfb98bf31f4ba996e
  32. Author: DhrubajyotiDas <ddas328@gmail.com>
  33. Date: Tue Nov 24 21:53:55 2015 -0500
  34.  
  35. Modified the _nbf_default function to return nbf as a list when in auto pilot.
  36.  
  37. commit 72af87840d328cfb7d8c394b59b4853fd4249f0e
  38. Author: DhrubajyotiDas <ddas328@gmail.com>
  39. Date: Tue Nov 24 20:59:15 2015 -0500
  40.  
  41. Typo in docstring
  42.  
  43. commit 05f82d4695b0c7f74d8d0efa25a10d7b1678363f
  44. Author: DhrubajyotiDas <ddas328@gmail.com>
  45. Date: Tue Nov 24 16:34:40 2015 -0500
  46.  
  47. Fixed minor typos in _nbf_default function
  48.  
  49. commit 34713a832022ddc56f1151acbec7e0d47c736d1b
  50. Author: DhrubajyotiDas <ddas328@gmail.com>
  51. Date: Tue Nov 24 14:54:32 2015 -0500
  52.  
  53. Added asymmetric basis set generation functions
  54.  
  55. commit b4e36f98be0efc48a1bc91aac95547b70c188639
  56. Author: DhrubajyotiDas <ddas328@gmail.com>
  57. Date: Tue Nov 24 14:53:46 2015 -0500
  58.  
  59. Added asymmetric transform function
  60.  
  61. commit 88cf3db0d55c7e7243a9930d8eef7c30acb618a6
  62. Author: DhrubajyotiDas <ddas328@gmail.com>
  63. Date: Mon Nov 23 23:59:28 2015 -0500
  64.  
  65. Added new rectangle-compatible centering function.
  66.  
  67. commit dda8e3cb4d27de3a432435afa50ba7773bfb7894
  68. Author: DhrubajyotiDas <ddas328@gmail.com>
  69. Date: Mon Nov 23 22:52:34 2015 -0500
  70.  
  71. Fixed typo in function description.
  72.  
  73. commit fb1051cb1ecc4f32c13fb59e1c8dfadc1c86b098
  74. Author: DanHickstein <danhickstein@gmail.com>
  75. Date: Tue Dec 1 14:03:31 2015 -0700
  76.  
  77. Changed version to 0.7.0
  78.  
  79. commit a0d64ca0a51f37f289e1e22d7dbcdf3101e4afe8
  80. Merge: a3c374b 4448563
  81. Author: Roman Yurchak <rth@crans.org>
  82. Date: Tue Dec 1 21:41:08 2015 +0100
  83.  
  84. Merge pull request #42 from DanHickstein/improve-comments
  85.  
  86. Improve comments and tweak calc_speeds
  87.  
  88. commit 444856339dc3f2b769c6fc8353420d8959892bfd
  89. Author: DanHickstein <danhickstein@gmail.com>
  90. Date: Tue Dec 1 10:21:48 2015 -0700
  91.  
  92. Improved comments in examples
  93.  
  94. commit b1d2869c841e075f7fb0b81c75c6c810b1587f57
  95. Author: DanHickstein <danhickstein@gmail.com>
  96. Date: Tue Dec 1 10:17:25 2015 -0700
  97.  
  98. Revert "Improved documentation in examples"
  99.  
  100. This reverts commit 28afdcd94f99c44acf2b1fa7afd121dcbfafc72e.
  101.  
  102. commit 28afdcd94f99c44acf2b1fa7afd121dcbfafc72e
  103. Author: DanHickstein <danhickstein@gmail.com>
  104. Date: Tue Dec 1 10:16:42 2015 -0700
  105.  
  106. Improved documentation in examples
  107.  
  108. commit f786f55deb448c2a968fcc2f632d15305b33bada
  109. Author: DanHickstein <danhickstein@gmail.com>
  110. Date: Tue Dec 1 10:08:47 2015 -0700
  111.  
  112. Improved comments in tools.py
  113.  
  114. commit e4f20e36d543d75aba5344a9e1041c24e4fca08c
  115. Author: DanHickstein <danhickstein@gmail.com>
  116. Date: Tue Dec 1 10:00:54 2015 -0700
  117.  
  118. Changed calc_speeds to take just one argument
  119.  
  120. commit 7cbbc62f617ad3d816deb9dc07d09e97aead0300
  121. Author: DanHickstein <danhickstein@gmail.com>
  122. Date: Tue Dec 1 09:43:40 2015 -0700
  123.  
  124. Removed unnecessary calculation from calc_speeds.
  125.  
  126. Some vestigial code was lurking in calc_speeds. Probably from a long,
  127. long time ago.
  128.  
  129. commit b88598f6576ab95cc4b267371cb73cfe4afbe6f5
  130. Author: DanHickstein <danhickstein@gmail.com>
  131. Date: Tue Dec 1 09:36:43 2015 -0700
  132.  
  133. Improved comments for io.py
  134.  
  135. commit 20dac417a32cfdb678acbd898637e7e5ced149f9
  136. Author: DanHickstein <danhickstein@gmail.com>
  137. Date: Tue Dec 1 09:29:29 2015 -0700
  138.  
  139. Improved comments in base.py
  140.  
  141. commit 6b2150ae1acbf1300d5cf7815d017b9649a0c2b1
  142. Author: DanHickstein <danhickstein@gmail.com>
  143. Date: Tue Dec 1 09:16:26 2015 -0700
  144.  
  145. removed old "example.py"
  146.  
  147. This example no longer works and it covered by the photoelectron
  148. example. Also, renamed the experimental example to
  149. ``example_basex_photoelectron.py`` to be more descriptive.
  150.  
  151. commit 4424bb0d72fc934415cf88a72a2e302075671678
  152. Author: DanHickstein <danhickstein@gmail.com>
  153. Date: Tue Dec 1 09:14:39 2015 -0700
  154.  
  155. Changed the names of the examples to include "basex"
  156.  
  157. commit a3c374b58cfcfa9ec205fbfae9d878f89357dc59
  158. Merge: 38b31b6 133cd6c
  159. Author: Roman Yurchak <rth@crans.org>
  160. Date: Tue Dec 1 16:58:13 2015 +0100
  161.  
  162. Merge pull request #37 from DanHickstein/better-center
  163.  
  164. Fixed centering function
  165.  
  166. commit 133cd6cd8e9a9184cf32b2ee09480599bf316aee
  167. Author: DanHickstein <danhickstein@gmail.com>
  168. Date: Tue Dec 1 08:55:46 2015 -0700
  169.  
  170. Fixed silly mistake
  171.  
  172. Whoops, forgot to make "center_image" return anything!
  173.  
  174. commit 341ac10f8b308a9e14b14ba82152619d6215c20e
  175. Author: DanHickstein <danhickstein@gmail.com>
  176. Date: Tue Dec 1 08:51:31 2015 -0700
  177.  
  178. Switched to one-liner
  179.  
  180. Also improved documentation
  181.  
  182. commit a13683ccf93ff25879495a947a4bfd73045144b9
  183. Author: DanHickstein <danhickstein@gmail.com>
  184. Date: Tue Dec 1 08:43:56 2015 -0700
  185.  
  186. Changed the centering function to return even-sized images
  187.  
  188. commit 35df1568286904bff28335eaa08aae2b19a6b0e7
  189. Merge: e545256 38b31b6
  190. Author: DanHickstein <danhickstein@gmail.com>
  191. Date: Tue Dec 1 08:38:17 2015 -0700
  192.  
  193. Merge remote-tracking branch 'PyAbel/master' into better-center
  194.  
  195. commit 38b31b624a6fa5d836ae5b36cbd815e627a41fa4
  196. Merge: 8cd6e66 2fe1dac
  197. Author: Roman Yurchak <rth@crans.org>
  198. Date: Tue Dec 1 16:32:28 2015 +0100
  199.  
  200. Merge pull request #38 from rth/master
  201.  
  202. Add unit tests for the centering function
  203.  
  204. commit 2fe1dac9bb68df74143141d92120e2d84f682ba9
  205. Author: Roman Yurchak <rth@crans.org>
  206. Date: Mon Nov 30 23:57:32 2015 +0100
  207.  
  208. Add reorientate function to `get_image_quadrants`
  209.  
  210. commit d218fc0502c0966fc39e0605cf89be7dc810bdf7
  211. Author: Roman Yurchak <rth@crans.org>
  212. Date: Mon Nov 30 17:05:25 2015 +0100
  213.  
  214. Add tests for the centering function
  215.  
  216. commit 1be8c268f2da618e9e9e13d55d53599d637d3a6a
  217. Author: Roman Yurchak <rth@crans.org>
  218. Date: Mon Nov 30 16:51:13 2015 +0100
  219.  
  220. Test to enforce that center_image preserves shape
  221.  
  222. commit 78ee4ef3ac64f1d06b0ebeda1e156a89c11f414d
  223. Author: Roman Yurchak <rth@crans.org>
  224. Date: Mon Nov 30 15:48:02 2015 +0100
  225.  
  226. Extended the is_symmetric to work both in 2D and 1D
  227.  
  228. commit a7e32d7f9f6ba3a0fcf99de910c9e233e7dfa60a
  229. Author: Roman Yurchak <rth@crans.org>
  230. Date: Mon Nov 30 15:41:01 2015 +0100
  231.  
  232. Add `is_symmetric` function
  233.  
  234. commit e54525609d252e3481cbbe09f580318caa452599
  235. Author: DanHickstein <danhickstein@gmail.com>
  236. Date: Sun Nov 29 17:39:10 2015 -0500
  237.  
  238. Made center one line
  239.  
  240. commit 7fd35746042e8b163ce45a59c6d996fffb21a85d
  241. Author: DanHickstein <danhickstein@gmail.com>
  242. Date: Sun Nov 29 17:32:29 2015 -0500
  243.  
  244. Changed center function to center correctly and handle even image with the lower left corner
  245.  
  246. commit 8cd6e660f969f698a4df940532fe6a46f4f949f7
  247. Merge: 0a9c093 128b622
  248. Author: Danhickstein <danhickstein@gmail.com>
  249. Date: Tue Nov 24 11:03:27 2015 -0500
  250.  
  251. Merge pull request #33 from rth/master
  252.  
  253. For nbf='auto', set nbf=n//2 + 1 and added gaussian function
  254.  
  255. commit 128b622a8de9852bbada2f8ae4237baad638db41
  256. Author: Roman Yurchak <rth@crans.org>
  257. Date: Tue Nov 24 16:53:29 2015 +0100
  258.  
  259. Removed unused file examples/basex_basis_501_250.npy
  260.  
  261. commit 1844366462b6fc8666843d6d28dd15a8d1aaea65
  262. Author: Roman Yurchak <rth@crans.org>
  263. Date: Tue Nov 24 16:46:59 2015 +0100
  264.  
  265. Added a unit test to check the shape of the BASEX result
  266.  
  267. commit 5da3cd9c77323be017d233a3f1fa82b474ae9f85
  268. Author: Roman Yurchak <rth@crans.org>
  269. Date: Tue Nov 24 14:36:22 2015 +0100
  270.  
  271. Added a gaussian function; updated tests and examples
  272.  
  273. commit 527e868c26fe4aacfbdfc825a7c30a0ae33b56ae
  274. Author: Roman Yurchak <rth@crans.org>
  275. Date: Tue Nov 24 11:16:39 2015 +0100
  276.  
  277. For nbf='auto', set nbf=n//2 + 1
  278.  
  279. commit 0a9c093283375936cf3cf0ba2b4e59aa85b13042
  280. Merge: ffa499a 6cec14f
  281. Author: Roman Yurchak <rth@crans.org>
  282. Date: Mon Nov 23 10:28:21 2015 +0100
  283.  
  284. Merge pull request #31 from DanHickstein/small-tweaks
  285.  
  286. A few small tweaks to the readme
  287.  
  288. commit 6cec14fc0adb53105e0a8dba4875153a658c249f
  289. Author: DanHickstein <danhickstein@gmail.com>
  290. Date: Sun Nov 22 23:02:36 2015 -0500
  291.  
  292. A few small tweaks to the readme
  293.  
  294. Also, I removed “#!/usr/bin/python” from the top of abel/test/run.py
  295. since it doesn’t seem necessary.
  296.  
  297. commit ffa499a4b9bb19f519aeea7a2013f58d4160eea4
  298. Merge: 6053218 8329133
  299. Author: Roman Yurchak <rth@crans.org>
  300. Date: Sun Nov 22 10:53:40 2015 +0100
  301.  
  302. Merge pull request #29 from DanHickstein/small-example-image
  303.  
  304. Modified the example to use a smaller image
  305.  
  306. commit 83291339843849fe8720d4dd5f0dbfec850879d9
  307. Author: DanHickstein <danhickstein@gmail.com>
  308. Date: Sat Nov 21 15:07:25 2015 -0700
  309.  
  310. Modified the example to use a smaller image
  311.  
  312. Also added better comments the example and generally polished it.
  313.  
  314. commit 605321863146a82a4d881c0092d3911d7acf8a92
  315. Merge: 6da8d7e 167ec1b
  316. Author: Danhickstein <danhickstein@gmail.com>
  317. Date: Sat Nov 21 09:41:48 2015 -0700
  318.  
  319. Merge pull request #28 from rth/code_refactoring_v2
  320.  
  321. Code refactoring v2
  322.  
  323. commit 167ec1bb56686e0ec65032e3de738a1249ca8721
  324. Author: Roman Yurchak <rth@crans.org>
  325. Date: Sat Nov 21 16:40:33 2015 +0100
  326.  
  327. Regenerated examples/basex_basis_501_250.npy in the new format
  328.  
  329. commit d657a54e36bcea6a83fc684fa3ade3bcafce5ba9
  330. Author: Roman Yurchak <rth@crans.org>
  331. Date: Sat Nov 21 16:39:14 2015 +0100
  332.  
  333. Fixed examples broken by the update
  334.  
  335. commit 90cf2451103442dfbbb522d6b3d7181e01be4973
  336. Author: Roman Yurchak <rth@crans.org>
  337. Date: Sat Nov 21 15:46:40 2015 +0100
  338.  
  339. Merged BASEX.__init__ and BASEX.run into a single function
  340.  
  341. commit e7c997541b585df5d9ffb1cbdb0f4325d427896e
  342. Author: Roman Yurchak <rth@crans.org>
  343. Date: Sat Nov 21 15:28:37 2015 +0100
  344.  
  345. Issue #20: removed additional_files/ from the last commit
  346.  
  347. commit 6da8d7e045641a1a877bf957c674bcaf0bf31939
  348. Merge: f6bc03e 3a48a2b
  349. Author: Roman Yurchak <rth@crans.org>
  350. Date: Sat Nov 21 01:32:09 2015 +0100
  351.  
  352. Merge pull request #22 from rth/code_refactoring_v1
  353.  
  354. Major code refactoring
  355.  
  356. commit 3a48a2b919fd7c767d9a80c7a4f0c18080e6b113
  357. Author: Roman Yurchak <rth@crans.org>
  358. Date: Sat Nov 21 01:30:16 2015 +0100
  359.  
  360. Remove the "basex" prefix from some function names
  361.  
  362. commit b07236991efc52f7b857346239de4d2d090db635
  363. Author: Roman Yurchak <rth@crans.org>
  364. Date: Fri Nov 20 23:30:09 2015 +0100
  365.  
  366. Adding superficial test coverage for abel.tools
  367.  
  368. commit e26bb41fc075bf736699a81f5ebb81b94c300084
  369. Author: Roman Yurchak <rth@crans.org>
  370. Date: Fri Nov 20 22:56:07 2015 +0100
  371.  
  372. Fixed broken examples
  373.  
  374. commit 3b1614e4ae7cc33827948d9e8fbc7d321eea982a
  375. Author: Roman Yurchak <rth@crans.org>
  376. Date: Fri Nov 20 22:42:58 2015 +0100
  377.  
  378. Refactored the definition of analytical functions, unit tests, and
  379.  
  380. benchmarks
  381.  
  382. commit eff2098a153de3ea293b8b6d6c13ddec8cf2e5e3
  383. Author: Roman Yurchak <rth@crans.org>
  384. Date: Fri Nov 20 21:12:02 2015 +0100
  385.  
  386. Updated tests and examples to use nbf='auto'
  387.  
  388. commit 6623c74355db0093eec49a4c348804cfa9021820
  389. Author: Roman Yurchak <rth@crans.org>
  390. Date: Fri Nov 20 21:07:55 2015 +0100
  391.  
  392. Added a canonical version definition under abel/_version.py
  393.  
  394. commit 13de2a76089147e591e4b1b77b6b982ad3fa011d
  395. Author: Roman Yurchak <rth@crans.org>
  396. Date: Fri Nov 20 21:01:59 2015 +0100
  397.  
  398. Majore code refactoring
  399.  
  400. commit 1c96d04b4cfd74200c7fbe1779f52279e1cf607e
  401. Author: Roman Yurchak <rth@crans.org>
  402. Date: Fri Nov 20 12:07:06 2015 +0100
  403.  
  404. Updated tests and examples broken by the code refactoring
  405.  
  406. commit 92680de900d7f2f2268c51871dc0aba11a2ea325
  407. Author: Roman Yurchak <rth@crans.org>
  408. Date: Fri Nov 20 12:01:18 2015 +0100
  409.  
  410. Merged basis.py and core.py; moved stuff to tools.py
  411.  
  412. commit f6bc03e4c629dbeff1961c038211093a8ac19a38
  413. Merge: 3e3d40f 8af1f5e
  414. Author: Roman Yurchak <rth@crans.org>
  415. Date: Fri Nov 20 01:16:25 2015 +0100
  416.  
  417. Merge pull request #17 from rth/absolute-scaling
  418.  
  419. Added a scaling factor to BASEX
  420.  
  421. commit 8af1f5ea931dc10bf721981d13d8c8f5f29e61fd
  422. Author: Roman Yurchak <rth@crans.org>
  423. Date: Wed Nov 18 14:25:36 2015 +0100
  424.  
  425. Issue #4: added a scaling factor 8.053
  426.  
  427. commit 3e3d40fc68b98f5be6f12dcd017839e55071e5b2
  428. Merge: fb34f7c 08d30f8
  429. Author: Roman Yurchak <rth@crans.org>
  430. Date: Fri Nov 20 00:42:06 2015 +0100
  431.  
  432. Merge pull request #21 from rth/dependencies_list
  433.  
  434. Added a list of dependencies
  435.  
  436. commit 08d30f8ac98c6bad592c7db8a693e8b249bd8014
  437. Author: Roman Yurchak <rth@crans.org>
  438. Date: Fri Nov 20 00:19:53 2015 +0100
  439.  
  440. Corrected the SymStep unit test as to remove a warning
  441.  
  442. of division by 0
  443.  
  444. commit 5698faa6d6460c6e8008279c654fa448537720c2
  445. Author: Roman Yurchak <rth@crans.org>
  446. Date: Fri Nov 20 00:16:52 2015 +0100
  447.  
  448. Set minimal scipy dependency to 0.14
  449.  
  450. commit 8a47d4ec083feaad16885bb8adc9088da2cf58f4
  451. Author: Roman Yurchak <rth@crans.org>
  452. Date: Fri Nov 20 00:12:06 2015 +0100
  453.  
  454. Issue #11: adding a list of dependencies
  455.  
  456. commit fb34f7c12d74abb2c35a6f57cf020d147cef0dce
  457. Merge: 50b0a62 0519991
  458. Author: Roman Yurchak <rth@crans.org>
  459. Date: Wed Nov 18 16:16:41 2015 +0100
  460.  
  461. Merge pull request #16 from rth/basex-test-step
  462.  
  463. Added unit tests for BASEX with a symmetric step
  464.  
  465. commit 05199915994b2d429475d7ad76ec6bc7abbe5b3b
  466. Author: Roman Yurchak <rth@crans.org>
  467. Date: Wed Nov 18 12:30:37 2015 +0100
  468.  
  469. Removed #!/usr/bin/python again
  470.  
  471. commit efd3c2b1b97a6304d687468b7a642c7e796e36d4
  472. Author: Roman Yurchak <rth@crans.org>
  473. Date: Wed Nov 18 11:26:51 2015 +0100
  474.  
  475. Issue #8: [BASEX] added a unit test with the SymStepBenchmark
  476.  
  477. commit 70466c9d9f1da012afda24cd1cdc942e22ea00ed
  478. Author: Roman Yurchak <rth@crans.org>
  479. Date: Wed Nov 18 11:14:17 2015 +0100
  480.  
  481. Issue #8: added the possibility of not saving the generated basis
  482.  
  483. for testing purposes mostly
  484.  
  485. commit 1c35d97995a028049fe69beda93078c3a8505036
  486. Author: Roman Yurchak <rth@crans.org>
  487. Date: Wed Nov 18 10:58:29 2015 +0100
  488.  
  489. Issue #8: addad a sanity test for SymStepBenchmark
  490.  
  491. commit c950ff5990a7b62124ae9e4b7b78e9e0014ba176
  492. Author: Roman Yurchak <rth@crans.org>
  493. Date: Wed Nov 18 10:37:01 2015 +0100
  494.  
  495. Issue #8: cleaned up symetric step example
  496.  
  497. commit 0fb36be794c61312b19eb78b742d571b6713a943
  498. Merge: 2ddcb2b 778c872
  499. Author: Roman Yurchak <rth@crans.org>
  500. Date: Wed Nov 18 00:39:59 2015 +0100
  501.  
  502. Merge pull request #15 from luli/travis-ci
  503.  
  504. Adding continuous integrations with Travis CI
  505.  
  506. commit 50b0a624e9dac55dbd72711c72505b8381327ad7
  507. Merge: 2ddcb2b 778c872
  508. Author: Roman Yurchak <rth@crans.org>
  509. Date: Wed Nov 18 00:39:59 2015 +0100
  510.  
  511. Merge pull request #15 from luli/travis-ci
  512.  
  513. Adding continuous integrations with Travis CI
  514.  
  515. commit 778c8720e6ce3e2b4c8207a53f8c9bdabf9602d8
  516. Author: Roman Yurchak <rth@crans.org>
  517. Date: Wed Nov 18 00:27:47 2015 +0100
  518.  
  519. Issue #11: finalize travis CI setup for the new module name
  520.  
  521. commit 769a4470863017359c896c13bf3674339cce4b8a
  522. Author: Roman Yurchak <rth@crans.org>
  523. Date: Wed Nov 18 00:13:41 2015 +0100
  524.  
  525. Issue #12: fixed things broken by the module name change
  526.  
  527. commit 1c8c7b6e78a8c6b08cd54c44a6bbe509b75e8414
  528. Author: Roman Yurchak <rth@crans.org>
  529. Date: Tue Nov 17 23:15:36 2015 +0100
  530.  
  531. Issue #4: adding a mechanism for applying a scaling factor
  532.  
  533. so that the BASEX algorithm returns the same result as the analytical
  534. transform
  535.  
  536. commit bcff70142859da1505c78ba49a9a6328850d82cc
  537. Author: Roman Yurchak <rth@crans.org>
  538. Date: Tue Nov 17 13:48:00 2015 +0100
  539.  
  540. Issue #8: analytical abel transform of a step function
  541.  
  542. used in unit tests. Also cleaned up basis set generation tests.
  543.  
  544. commit 12eb02223e173b80b77ed8f562166a0fff96dee7
  545. Author: Roman Yurchak <rth@crans.org>
  546. Date: Tue Nov 17 11:34:46 2015 +0100
  547.  
  548. Issue #8: updated basis generation tests
  549.  
  550. commit fa84de7f1d3196894143ab0b8d01ce8c01bbacba
  551. Author: Roman Yurchak <rth@crans.org>
  552. Date: Tue Nov 17 11:17:55 2015 +0100
  553.  
  554. Issue #11: add a MANIFEST.in file
  555.  
  556. commit 50905f86afb0dba300aa243ab3a533fc01947556
  557. Author: Roman Yurchak <rth@crans.org>
  558. Date: Tue Nov 17 11:02:41 2015 +0100
  559.  
  560. Issue #9: added the Travis CI badge to the Readme
  561.  
  562. commit d6ea6bc7eb6aab38153add83dd52bb9eab994552
  563. Author: Roman Yurchak <rth@crans.org>
  564. Date: Tue Nov 17 11:01:04 2015 +0100
  565.  
  566. Issue #8: added a more robust mechanism for running tests
  567.  
  568. commit 8dad2d14ac95c94ecf5408359274a4f6f077df3b
  569. Author: Roman Yurchak <rth@crans.org>
  570. Date: Tue Nov 17 10:34:00 2015 +0100
  571.  
  572. Issue #8: added a Travis CI setup
  573.  
  574. commit 2ddcb2b37141c4a8564d553992fa1ea3eb69f7e3
  575. Merge: 3fd65ea 75fe08a
  576. Author: Danhickstein <danhickstein@gmail.com>
  577. Date: Tue Nov 17 11:41:30 2015 -0700
  578.  
  579. Merge pull request #13 from PyAbel/change-name-to-pyabel
  580.  
  581. Change name to pyabel
  582.  
  583. commit 75fe08aa94ca3245eaba51f213c99ee9489d1806
  584. Author: DanHickstein <danhickstein@gmail.com>
  585. Date: Tue Nov 17 11:37:28 2015 -0700
  586.  
  587. Took the example out of the readme
  588.  
  589. commit 5cea19e03b72d227ac98b2ef464d011cce64ed46
  590. Author: DanHickstein <danhickstein@gmail.com>
  591. Date: Tue Nov 17 11:36:06 2015 -0700
  592.  
  593. Changed folder name to abel
  594.  
  595. also updates examples to use from abel import BASEX.
  596.  
  597. commit 30be2ab9cadbd997c82af9f839f9236f874889d3
  598. Author: DanHickstein <danhickstein@gmail.com>
  599. Date: Tue Nov 17 11:24:17 2015 -0700
  600.  
  601. Changed the readme to use PyAbel instead of pyBASEX
  602.  
  603. commit 3fd65eac335438c04ea1ef1340a801ebf52f1a2e
  604. Merge: 3dee897 649c2e2
  605. Author: Danhickstein <danhickstein@gmail.com>
  606. Date: Tue Nov 17 08:47:32 2015 -0700
  607.  
  608. Merge pull request #10 from luli/pep-style
  609.  
  610. Pep code style improvements
  611.  
  612. commit 649c2e2ee98157429a03fe82415d3da211c1c127
  613. Merge: 892e1a9 3dee897
  614. Author: Roman Yurchak <rth@crans.org>
  615. Date: Tue Nov 17 10:26:12 2015 +0100
  616.  
  617. Merge branch 'master' into pep-style
  618.  
  619. commit 892e1a943f3ea6ecb7dca4e73c54a3fe6d686ac3
  620. Author: Roman Yurchak <rth@crans.org>
  621. Date: Tue Nov 17 10:16:17 2015 +0100
  622.  
  623. Issue #9: added back the MAX_OFFSET string
  624.  
  625. Not sure why it got removed in the previous commits
  626.  
  627. commit 2671b6e273d409095960224a01b709985160bbbb
  628. Author: Roman Yurchak <rth@crans.org>
  629. Date: Tue Nov 17 10:12:12 2015 +0100
  630.  
  631. Issue #9: added some whitespaces for readability (PEP 0008)
  632.  
  633. commit a01c755ee452aa1d0f065752b9810acec4c86e0a
  634. Author: Roman Yurchak <rth@crans.org>
  635. Date: Tue Nov 17 10:02:19 2015 +0100
  636.  
  637. Issue #9: set version format to M.m.p
  638.  
  639. And added the version in `basex/__init__.py`
  640.  
  641. commit c01af0c92a50a39443049a203cf6ba3f747e5d12
  642. Author: Roman Yurchak <rth@crans.org>
  643. Date: Tue Nov 17 10:01:11 2015 +0100
  644.  
  645. Issue #9: finished renaming module name to lowercase
  646.  
  647. commit 7efbfe2b68cfc48309d875e4aa1f9b1f1f65907c
  648. Author: Roman Yurchak <rth@crans.org>
  649. Date: Tue Nov 17 09:46:20 2015 +0100
  650.  
  651. Issue #9: rename package name to lowercase (PEP 0008)
  652.  
  653. commit 3dee897bb30f8fc2de56ee661dc69ad30716a188
  654. Merge: 037ed82 fbbe63c
  655. Author: Danhickstein <danhickstein@gmail.com>
  656. Date: Mon Nov 16 10:22:02 2015 -0700
  657.  
  658. Merge pull request #7 from DanHickstein/code-cleanup-for-v0.5
  659.  
  660. Code cleanup for v0.5
  661.  
  662. commit fbbe63c487fcf85054c0c33267770d0ad5d2e322
  663. Author: DanHickstein <danhickstein@gmail.com>
  664. Date: Mon Nov 16 10:19:52 2015 -0700
  665.  
  666. More clean up - especially to the gaussian example
  667.  
  668. commit 88a8e345611d649cb08d10be05412bcf6864248e
  669. Author: DanHickstein <danhickstein@gmail.com>
  670. Date: Mon Nov 16 10:09:49 2015 -0700
  671.  
  672. A bit more code cleanup
  673.  
  674. commit f21f0eb34d9ef058633b7b108ada6baf901bdd59
  675. Author: DanHickstein <danhickstein@gmail.com>
  676. Date: Mon Nov 16 09:50:55 2015 -0700
  677.  
  678. Removed #!/usr/bin/python from the top of the scripts
  679.  
  680. I don’t think that it’s necessary to include this line since the
  681. package will be installed and imported (so python is already used).
  682. Also, many people will be using anaconda python (or Enthought) which
  683. does not typically live in /usr/bin/
  684.  
  685. commit 037ed821ef56560dbef6a595cc64a026b2101c37
  686. Author: DanHickstein <danhickstein@gmail.com>
  687. Date: Tue Oct 13 13:41:44 2015 -0600
  688.  
  689. fixed a typo
  690.  
  691. 3D should have been 2D
  692.  
  693. commit 35c356be9a4188280ee6e2344a3bea781a27ab76
  694. Author: DanHickstein <danhickstein@gmail.com>
  695. Date: Wed Jun 17 09:04:20 2015 -0600
  696.  
  697. Small changes to the readme
  698.  
  699. commit 5c762845f51a33c77d08c80d03bce64c76494d94
  700. Merge: e540b6b 617a5b4
  701. Author: Danhickstein <danhickstein@gmail.com>
  702. Date: Tue May 12 12:06:36 2015 -0600
  703.  
  704. Merge pull request #5 from DanHickstein/pr/3
  705.  
  706. Fixed the centering function
  707.  
  708. commit 617a5b460e08206c91288af4c56256d618c34b16
  709. Author: DanHickstein <danhickstein@gmail.com>
  710. Date: Tue May 12 12:04:31 2015 -0600
  711.  
  712. Minor formatting changes and fixed speeds
  713.  
  714. Lots of tiny tweaks to comments.
  715. Also, I made the speeds distribution cut off at n//2 instead of the old
  716. hard-coded approach that assumed a 1000x1000 basis set and cut off at
  717. 500. Since we have square images, we need to cut off the speeds
  718. distribution so that we don’t look at the corners.
  719.  
  720. commit 795d2c482461d91d225bde5e3f21f47c85c8d956
  721. Author: DanHickstein <danhickstein@gmail.com>
  722. Date: Tue May 12 11:51:26 2015 -0600
  723.  
  724. Changed default basis to 501_250
  725.  
  726. Users with slow computers might freak out when then run pyBasex the
  727. first time since generating the 1000x500 basis set takes a long time. I
  728. changed the default in the example to 501x250. Also, I included some
  729. text in the core.py to inform them not to freak out about the basis set
  730. generating process taking a few mins since it only needs to happen once.
  731.  
  732. commit 75e28bac34d92098891e487542faa39e6372813e
  733. Author: DanHickstein <danhickstein@gmail.com>
  734. Date: Tue May 12 11:43:12 2015 -0600
  735.  
  736. fixed the centering function
  737.  
  738. made the centering function work with more all possible cropping
  739. options. (Hopefully…)
  740.  
  741. commit e540b6be41aed0aa4c2cb28f3f89df795a910ae1
  742. Merge: d542901 0a6e1d9
  743. Author: Danhickstein <danhickstein@gmail.com>
  744. Date: Tue May 12 11:37:50 2015 -0600
  745.  
  746. Merge pull request #3 from luli/master
  747.  
  748. Thanks for all of these changes, I will merge them in and then fix the issue with the centering function.
  749.  
  750. commit 0a6e1d984a091137a200546a6d1eeb4ec1072efb
  751. Author: Roman Yurchak <rth@crans.org>
  752. Date: Thu May 7 23:31:37 2015 +0200
  753.  
  754. Making sure that the input number of basis functions is less then the
  755. the data size
  756.  
  757. commit 78168085f6d986e590c59d6086b6002f5cef6a06
  758. Author: Roman Yurchak <rth@crans.org>
  759. Date: Thu May 7 14:28:57 2015 +0200
  760.  
  761. Fixed multiple bugs
  762.  
  763. commit f64a9b0f582cb05e5ac346102c753045ab83b840
  764. Author: Roman Yurchak <rth@crans.org>
  765. Date: Thu May 7 00:54:30 2015 +0200
  766.  
  767. Validated the basis set generation against BASIS1.m
  768.  
  769. commit 2164dc3d8e1f2c832f8c8f4f015f0253deb29361
  770. Author: Roman Yurchak <rth@crans.org>
  771. Date: Sun May 3 11:44:58 2015 +0200
  772.  
  773. Reversed changes regarding the use of np.matix
  774.  
  775. commit d1f3a54d049d2baf040f70a2509f7f07dc975b40
  776. Author: Roman Yurchak <rth@crans.org>
  777. Date: Sat May 2 13:14:21 2015 +0200
  778.  
  779. Cleaned up the code of `BASEX/basis.py`
  780.  
  781. commit d062d24f7a1df8822818b547e1973cd5a46bb6c8
  782. Author: Roman Yurchak <rth@crans.org>
  783. Date: Sat May 2 12:55:33 2015 +0200
  784.  
  785. Added comments in the basis set generation and vectorized the 3rd loop
  786.  
  787. commit 3d5793ce939b38b25e41fbf7e82ed1df5ba7fd0f
  788. Author: Roman Yurchak <rth@crans.org>
  789. Date: Fri May 1 21:57:53 2015 +0200
  790.  
  791. Forgot to remove some print statements
  792.  
  793. commit ff70e359e7b63c7571edf890ecd484d239e2c074
  794. Author: Roman Yurchak <rth@crans.org>
  795. Date: Fri May 1 21:29:31 2015 +0200
  796.  
  797. Updated version number
  798.  
  799. commit e52c031b0187d0092504a95599107df680550b30
  800. Author: Roman Yurchak <rth@crans.org>
  801. Date: Fri May 1 20:51:43 2015 +0200
  802.  
  803. Added support for 1D input arrays
  804.  
  805. commit 65a4285a2d5df8e98a91b33faaa5a8f78c7f998b
  806. Author: Roman Yurchak <rth@crans.org>
  807. Date: Fri May 1 19:51:02 2015 +0200
  808.  
  809. Updated the readm
  810.  
  811. commit 17a5384338d0833d2435ce13a8aa4b8a1ab66a3c
  812. Author: Roman Yurchak <rth@crans.org>
  813. Date: Fri May 1 19:41:52 2015 +0200
  814.  
  815. Adapted examples to the new workflow
  816.  
  817. commit f5bc011400312992d70235988d168d9c068211ba
  818. Author: Roman Yurchak <rth@crans.org>
  819. Date: Fri May 1 18:24:04 2015 +0200
  820.  
  821. Optimized the basis set generation and added tests
  822.  
  823. commit e0546185efb163cade08dd3c78201308bc9219aa
  824. Author: Roman Yurchak <rth@crans.org>
  825. Date: Fri May 1 16:34:41 2015 +0200
  826.  
  827. Added the generation of a basis set in python
  828.  
  829. commit 6c9989f3ffd0c3f3621e700ff905bb0ba19cd995
  830. Author: Roman Yurchak <rth@crans.org>
  831. Date: Fri May 1 13:55:46 2015 +0200
  832.  
  833. Rewrote linear algebra operations with np.matrix, and added unit tests
  834.  
  835. commit ee18b4d3f38cf464e40ec42491cc0e91ebeab442
  836. Author: Roman Yurchak <rth@crans.org>
  837. Date: Fri May 1 12:00:50 2015 +0200
  838.  
  839. Transforming BASEX to a standalone package added setup.py
  840.  
  841. commit d5429016b77ace29d8d9c45be2becaf64d17f469
  842. Merge: 2e33729 7fc82b3
  843. Author: Danhickstein <danhickstein@gmail.com>
  844. Date: Tue Mar 3 18:29:47 2015 -0700
  845.  
  846. Merge pull request #2 from ellisje624/master
  847.  
  848. Just added a comment to the example file
  849.  
  850. commit 7fc82b395545b1eb43ada7ad985337d84262c9fc
  851. Author: ellisje624 <jennifer.ellis624@gmail.com>
  852. Date: Tue Mar 3 18:27:53 2015 -0700
  853.  
  854. Just added a comment to the example file
  855.  
  856. commit 2e33729be3c8d602187fbab04113b58dd65c18bb
  857. Author: DanHickstein <danhickstein@gmail.com>
  858. Date: Tue Feb 3 08:23:20 2015 -0700
  859.  
  860. Fixed basis set loading and loaded raw image
  861.  
  862. In some cases (linux?), it seems that plt.imread loads the image in
  863. rbga instead of black and white. I switched to loading the raw image.
  864. Also, I had disabled the loading of the npy format basis sets (faster)
  865. during debugging and forgot to enable them. Now it works again.
  866.  
  867. commit 2131c2400007f2f43c8500298a7dd0b5fc957db6
  868. Author: DanHickstein <danhickstein@gmail.com>
  869. Date: Mon Feb 2 09:43:04 2015 -0700
  870.  
  871. moved some example files around
  872.  
  873. commit 761619ea4bc79b4e5c3a0e69f395ebab279005f7
  874. Author: DanHickstein <danhickstein@gmail.com>
  875. Date: Sun Feb 1 22:17:43 2015 -0700
  876.  
  877. made version numbers more realistic
  878.  
  879. Before we can call it “Version 1.0”, it needs to be better documented
  880. and tested.
  881.  
  882. commit 85cfbb5badc3c4a21e42a4c92ecf8a6409e57fb2
  883. Author: DanHickstein <danhickstein@gmail.com>
  884. Date: Sun Feb 1 22:12:50 2015 -0700
  885.  
  886. First upload of the files
  887.  
  888. first time uploading to github
  889.  
  890. commit 91ae75dd87e61e558cc29aea0b81b368f7963913
  891. Author: Danhickstein <danhickstein@gmail.com>
  892. Date: Sun Feb 1 20:59:28 2015 -0700
  893.  
  894. Initial commit
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