René's URL Explorer Experiment

Title: Commits · stromtutorial/stromtutorial.github.io · GitHub

Open Graph Title: Commits · stromtutorial/stromtutorial.github.io

X Title: Commits · stromtutorial/stromtutorial.github.io

Description: Main web home for the Strom Phylogenetics C++ tutorial. - Commits · stromtutorial/stromtutorial.github.io

Open Graph Description: Main web home for the Strom Phylogenetics C++ tutorial. - Commits · stromtutorial/stromtutorial.github.io

X Description: Main web home for the Strom Phylogenetics C++ tutorial. - Commits · stromtutorial/stromtutorial.github.io

Opengraph URL: https://github.com/stromtutorial/stromtutorial.github.io

X: @github

direct link

Domain: github.com

route-pattern	/:user_id/:repository/commits(/*name)
route-controller	commits
route-action	show
fetch-nonce	v2:fa40a5b5-fc17-3193-9066-06c38716b4ca
current-catalog-service-hash	f3abb0cc802f3d7b95fc8762b94bdcb13bf39634c40c357301c4aa1d67a256fb
request-id	A19E:2E40D:1AADE6:242CB5:698F5C48
html-safe-nonce	600e9f8c2d3220919e1fc0c83f76eca51e328e8c709657387e26c33eae477e25
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visitor-hmac	2c38b1201f8206454db0f4f5f7d8cb1eb4c556306b4f041adb4ec07baf770fd0
hovercard-subject-tag	repository:161959421
github-keyboard-shortcuts	repository,commit-list,copilot
google-site-verification	Apib7-x98H0j5cPqHWwSMm6dNU4GmODRoqxLiDzdx9I
octolytics-url	https://collector.github.com/github/collect
analytics-location	///commits/show
fb:app_id	1401488693436528
apple-itunes-app	app-id=1477376905, app-argument=https://github.com/stromtutorial/stromtutorial.github.io/commits/source
twitter:image	https://opengraph.githubassets.com/c4b42e078960c6d78a4ced401ddcab151f0fb6552859ea867e5a1b781c4ba0f4/stromtutorial/stromtutorial.github.io
twitter:card	summary_large_image
og:image	https://opengraph.githubassets.com/c4b42e078960c6d78a4ced401ddcab151f0fb6552859ea867e5a1b781c4ba0f4/stromtutorial/stromtutorial.github.io
og:image:alt	Main web home for the Strom Phylogenetics C++ tutorial. - Commits · stromtutorial/stromtutorial.github.io
og:image:width	1200
og:image:height	600
og:site_name	GitHub
og:type	object
hostname	github.com
expected-hostname	github.com
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turbo-cache-control	no-cache
go-import	github.com/stromtutorial/stromtutorial.github.io git https://github.com/stromtutorial/stromtutorial.github.io.git
octolytics-dimension-user_id	41973327
octolytics-dimension-user_login	stromtutorial
octolytics-dimension-repository_id	161959421
octolytics-dimension-repository_nwo	stromtutorial/stromtutorial.github.io
octolytics-dimension-repository_public	true
octolytics-dimension-repository_is_fork	false
octolytics-dimension-repository_network_root_id	161959421
octolytics-dimension-repository_network_root_nwo	stromtutorial/stromtutorial.github.io
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release	b8e9d6dae5817b2dbe0a3d6d920ff8d3db837168
ui-target	full
theme-color	#1e2327
color-scheme	light dark

Links:

Skip to content	https://github.com/stromtutorial/stromtutorial.github.io/commits/source/#start-of-content
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Sign in	https://github.com/login?return_to=https%3A%2F%2Fgithub.com%2Fstromtutorial%2Fstromtutorial.github.io%2Fcommits%2Fsource%2F
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Code	https://github.com/stromtutorial/stromtutorial.github.io/tree/source
Issues 2	https://github.com/stromtutorial/stromtutorial.github.io/issues
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fixed bool _tree_index bug throughout all steps	https://github.com/stromtutorial/stromtutorial.github.io/commit/e22cc6edd1c5027f6052997955c922c6c5c3da04
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plewis	https://github.com/stromtutorial/stromtutorial.github.io/commits?author=plewis
e22cc6e	https://github.com/stromtutorial/stromtutorial.github.io/commit/e22cc6edd1c5027f6052997955c922c6c5c3da04
	https://github.com/stromtutorial/stromtutorial.github.io/tree/e22cc6edd1c5027f6052997955c922c6c5c3da04
added minor version to title of home page	https://github.com/stromtutorial/stromtutorial.github.io/commit/61ad3e847f9efdf4ac3b25ee458a101f8449f975
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61ad3e8	https://github.com/stromtutorial/stromtutorial.github.io/commit/61ad3e847f9efdf4ac3b25ee458a101f8449f975
	https://github.com/stromtutorial/stromtutorial.github.io/tree/61ad3e847f9efdf4ac3b25ee458a101f8449f975
step 20 implemented fully	https://github.com/stromtutorial/stromtutorial.github.io/commit/57e7283fd16f51f481c15f28f933297eb5b6e7d7
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	https://github.com/stromtutorial/stromtutorial.github.io/tree/57e7283fd16f51f481c15f28f933297eb5b6e7d7
Started working on step 20 on steppingstone	https://github.com/stromtutorial/stromtutorial.github.io/commit/03ba467f33fb190a36a6e038c3fa08ffebded279
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	https://github.com/stromtutorial/stromtutorial.github.io/tree/03ba467f33fb190a36a6e038c3fa08ffebded279
Marginal likelihood estimation via steppingstone method implemented	https://github.com/stromtutorial/stromtutorial.github.io/commit/f6cfb8c4677d07666579e7e8d1058ead9b406559
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f6cfb8c	https://github.com/stromtutorial/stromtutorial.github.io/commit/f6cfb8c4677d07666579e7e8d1058ead9b406559
	https://github.com/stromtutorial/stromtutorial.github.io/tree/f6cfb8c4677d07666579e7e8d1058ead9b406559
Fixed tutorial text and gamma_ratevar_updater.hpp in steps 14-19 to reflect change to centered-window proposal and elimination of multiplicative proposal	https://github.com/stromtutorial/stromtutorial.github.io/commit/6dff6222ff2bf15d63f63980a9e6191a930fd930
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6dff622	https://github.com/stromtutorial/stromtutorial.github.io/commit/6dff6222ff2bf15d63f63980a9e6191a930fd930
	https://github.com/stromtutorial/stromtutorial.github.io/tree/6dff6222ff2bf15d63f63980a9e6191a930fd930
Fixed bug in GammaRateVarUpdater, switching to a window-based updater because a multiplicative updater does not work if the rate variance starts at 0.0. This change needs to be propagated back to s…	https://github.com/stromtutorial/stromtutorial.github.io/commit/ec2174b07a804f6e3313e7099f874d76ad016758
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	https://github.com/stromtutorial/stromtutorial.github.io/tree/ec2174b07a804f6e3313e7099f874d76ad016758
adding resolution class m to console output	https://github.com/stromtutorial/stromtutorial.github.io/commit/94297fb578374b1a4bcd18073f23df6a1ecc1a43
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	https://github.com/stromtutorial/stromtutorial.github.io/tree/94297fb578374b1a4bcd18073f23df6a1ecc1a43
revised reroot figure	https://github.com/stromtutorial/stromtutorial.github.io/commit/0e74394509930b135a150be3bfaecc3bd13eb191
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0e74394	https://github.com/stromtutorial/stromtutorial.github.io/commit/0e74394509930b135a150be3bfaecc3bd13eb191
	https://github.com/stromtutorial/stromtutorial.github.io/tree/0e74394509930b135a150be3bfaecc3bd13eb191
removed warning message about bugs being fixed recently	https://github.com/stromtutorial/stromtutorial.github.io/commit/87e536765ba6f7557f930bb666673d26f2368d3b
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	https://github.com/stromtutorial/stromtutorial.github.io/tree/87e536765ba6f7557f930bb666673d26f2368d3b
fixing same bug in all steps (last commit fixed it only in step 19)	https://github.com/stromtutorial/stromtutorial.github.io/commit/44cb392efb9efab2244d3d551b8c30a34ec8ed8e
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44cb392	https://github.com/stromtutorial/stromtutorial.github.io/commit/44cb392efb9efab2244d3d551b8c30a34ec8ed8e
	https://github.com/stromtutorial/stromtutorial.github.io/tree/44cb392efb9efab2244d3d551b8c30a34ec8ed8e
fixed bug in TreeManip::rerootAtNode and modified TreeManip::buildFromNewick to avoid calling refreshPreorder and refreshLevelorder functions twice	https://github.com/stromtutorial/stromtutorial.github.io/commit/3ca0eed9195ac13125c1014a4ebb011e91f6e13a
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	https://github.com/stromtutorial/stromtutorial.github.io/tree/3ca0eed9195ac13125c1014a4ebb011e91f6e13a
fixed typo in index.md file	https://github.com/stromtutorial/stromtutorial.github.io/commit/527f55716c0e3122032910e5712112291f6d895d
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Changed warning message about bugs fixed	https://github.com/stromtutorial/stromtutorial.github.io/commit/7d85991c0219e4891c41a34fdc63aac1e12a0c42
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	https://github.com/stromtutorial/stromtutorial.github.io/tree/7d85991c0219e4891c41a34fdc63aac1e12a0c42
adding reference output for step 19	https://github.com/stromtutorial/stromtutorial.github.io/commit/0def8217b7d1a984ba52f623c0dcf37e78e3e977
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	https://github.com/stromtutorial/stromtutorial.github.io/tree/0def8217b7d1a984ba52f623c0dcf37e78e3e977
adding go script to step 19 test directory	https://github.com/stromtutorial/stromtutorial.github.io/commit/46c943f428d1cb47dc6111118efa975550a1a9b2
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	https://github.com/stromtutorial/stromtutorial.github.io/tree/46c943f428d1cb47dc6111118efa975550a1a9b2
fixed bugs in step 19	https://github.com/stromtutorial/stromtutorial.github.io/commit/f54a4144e426a0442277d1782eb1debf3de355d4
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	https://github.com/stromtutorial/stromtutorial.github.io/tree/f54a4144e426a0442277d1782eb1debf3de355d4
bugs fixed as a result of testing step 19	https://github.com/stromtutorial/stromtutorial.github.io/commit/183bf07a69067da975530a9807de94a39a2e4acc
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	https://github.com/stromtutorial/stromtutorial.github.io/tree/183bf07a69067da975530a9807de94a39a2e4acc
about to test step 19	https://github.com/stromtutorial/stromtutorial.github.io/commit/d6c9833376f2ec97714b3405ad5a97d790afa0be
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	https://github.com/stromtutorial/stromtutorial.github.io/tree/d6c9833376f2ec97714b3405ad5a97d790afa0be
bugs fixed while reviewing step 18	https://github.com/stromtutorial/stromtutorial.github.io/commit/45fa979b9a71ba5035a9f442053e9c85406424db
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	https://github.com/stromtutorial/stromtutorial.github.io/tree/45fa979b9a71ba5035a9f442053e9c85406424db
updating reference output for step 17	https://github.com/stromtutorial/stromtutorial.github.io/commit/7a266c7b190d9500ac2bcaf32d8a9c797aac025e
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	https://github.com/stromtutorial/stromtutorial.github.io/tree/7a266c7b190d9500ac2bcaf32d8a9c797aac025e
changed initial lambda for state freq updater to match later steps	https://github.com/stromtutorial/stromtutorial.github.io/commit/699bbba1ae6fa7de1655ac1cbcd44dce6b4d959a
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updating reference output for step 17	https://github.com/stromtutorial/stromtutorial.github.io/commit/38a90f9baffc7291c58c079c5c5dd17060c20e03
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added necessary header	https://github.com/stromtutorial/stromtutorial.github.io/commit/5479260e81831d0941541aac1330fe7d767f8fe1
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beaglelib cannot be linked statically	https://github.com/stromtutorial/stromtutorial.github.io/commit/2fdad3e831e50cda26f115c135a96927a238cf1c
	https://github.com/plewis
plewis	https://github.com/stromtutorial/stromtutorial.github.io/commits?author=plewis
2fdad3e	https://github.com/stromtutorial/stromtutorial.github.io/commit/2fdad3e831e50cda26f115c135a96927a238cf1c
	https://github.com/stromtutorial/stromtutorial.github.io/tree/2fdad3e831e50cda26f115c135a96927a238cf1c
fixed bugs discovered during review of tutorial	https://github.com/stromtutorial/stromtutorial.github.io/commit/c2ff17d7f42473ae7e0f5b600daea1ad11a26e60
	https://github.com/plewis
plewis	https://github.com/stromtutorial/stromtutorial.github.io/commits?author=plewis
c2ff17d	https://github.com/stromtutorial/stromtutorial.github.io/commit/c2ff17d7f42473ae7e0f5b600daea1ad11a26e60
	https://github.com/stromtutorial/stromtutorial.github.io/tree/c2ff17d7f42473ae7e0f5b600daea1ad11a26e60
fixes prompted by review of tutorial	https://github.com/stromtutorial/stromtutorial.github.io/commit/f4b99b0de2bcde0e2d0ecd4c4f7f5d08a688b27b
	https://github.com/plewis
plewis	https://github.com/stromtutorial/stromtutorial.github.io/commits?author=plewis
f4b99b0	https://github.com/stromtutorial/stromtutorial.github.io/commit/f4b99b0de2bcde0e2d0ecd4c4f7f5d08a688b27b
	https://github.com/stromtutorial/stromtutorial.github.io/tree/f4b99b0de2bcde0e2d0ecd4c4f7f5d08a688b27b
appending existing LD_LIBRARY_PATH in go script	https://github.com/stromtutorial/stromtutorial.github.io/commit/eeeb810a74983d9e8fc457a4a67ddd931a28987d
	https://github.com/plewis
plewis	https://github.com/stromtutorial/stromtutorial.github.io/commits?author=plewis
eeeb810	https://github.com/stromtutorial/stromtutorial.github.io/commit/eeeb810a74983d9e8fc457a4a67ddd931a28987d
	https://github.com/stromtutorial/stromtutorial.github.io/tree/eeeb810a74983d9e8fc457a4a67ddd931a28987d
fixed made during testing	https://github.com/stromtutorial/stromtutorial.github.io/commit/9ac18b712043ff2c5737ede00d61a4d9e982cdda
	https://github.com/plewis
plewis	https://github.com/stromtutorial/stromtutorial.github.io/commits?author=plewis
9ac18b7	https://github.com/stromtutorial/stromtutorial.github.io/commit/9ac18b712043ff2c5737ede00d61a4d9e982cdda
	https://github.com/stromtutorial/stromtutorial.github.io/tree/9ac18b712043ff2c5737ede00d61a4d9e982cdda
fixes resulting from review	https://github.com/stromtutorial/stromtutorial.github.io/commit/5e2509ec4035834b036b57218fcd286f67629be8
	https://github.com/plewis
plewis	https://github.com/stromtutorial/stromtutorial.github.io/commits?author=plewis
5e2509e	https://github.com/stromtutorial/stromtutorial.github.io/commit/5e2509ec4035834b036b57218fcd286f67629be8
	https://github.com/stromtutorial/stromtutorial.github.io/tree/5e2509ec4035834b036b57218fcd286f67629be8
fixes resulting from testing	https://github.com/stromtutorial/stromtutorial.github.io/commit/54e0200e53f742913284d818ac1c36cfeeacdcad
	https://github.com/plewis
plewis	https://github.com/stromtutorial/stromtutorial.github.io/commits?author=plewis
54e0200	https://github.com/stromtutorial/stromtutorial.github.io/commit/54e0200e53f742913284d818ac1c36cfeeacdcad
	https://github.com/stromtutorial/stromtutorial.github.io/tree/54e0200e53f742913284d818ac1c36cfeeacdcad
fixes	https://github.com/stromtutorial/stromtutorial.github.io/commit/211d7dd73825a38af164f8aa4c5684130d2ded9e
	https://github.com/stromtutorial
stromtutorial	https://github.com/stromtutorial/stromtutorial.github.io/commits?author=stromtutorial
211d7dd	https://github.com/stromtutorial/stromtutorial.github.io/commit/211d7dd73825a38af164f8aa4c5684130d2ded9e
	https://github.com/stromtutorial/stromtutorial.github.io/tree/211d7dd73825a38af164f8aa4c5684130d2ded9e
fixes for problems discovered during testing	https://github.com/stromtutorial/stromtutorial.github.io/commit/bafbacb71d3a9b2dcdfcfc6bd281812cbc1a3b6e
	https://github.com/stromtutorial
stromtutorial	https://github.com/stromtutorial/stromtutorial.github.io/commits?author=stromtutorial
bafbacb	https://github.com/stromtutorial/stromtutorial.github.io/commit/bafbacb71d3a9b2dcdfcfc6bd281812cbc1a3b6e
	https://github.com/stromtutorial/stromtutorial.github.io/tree/bafbacb71d3a9b2dcdfcfc6bd281812cbc1a3b6e
fixing problems found in steps 10 and 11	https://github.com/stromtutorial/stromtutorial.github.io/commit/4bc838afd569be7ced831d78c1883c9d92e4a74b
	https://github.com/plewis
plewis	https://github.com/stromtutorial/stromtutorial.github.io/commits?author=plewis
4bc838a	https://github.com/stromtutorial/stromtutorial.github.io/commit/4bc838afd569be7ced831d78c1883c9d92e4a74b
	https://github.com/stromtutorial/stromtutorial.github.io/tree/4bc838afd569be7ced831d78c1883c9d92e4a74b
changing cerr to cout in constructor and destructor calls and adding LD_LIBRARY_PATH to test script for steps in which BeagleLib is used	https://github.com/stromtutorial/stromtutorial.github.io/commit/700555aa1550bac7af812b96fac71e6848e38bf1
	https://github.com/plewis
plewis	https://github.com/stromtutorial/stromtutorial.github.io/commits?author=plewis
700555a	https://github.com/stromtutorial/stromtutorial.github.io/commit/700555aa1550bac7af812b96fac71e6848e38bf1
	https://github.com/stromtutorial/stromtutorial.github.io/tree/700555aa1550bac7af812b96fac71e6848e38bf1
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