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RevBayesTutorial - Revision history
2024-03-29T10:38:38Z
Revision history for this page on the wiki
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http://www.peterbeerli.com/classes/index.php?title=RevBayesTutorial&diff=782&oldid=prev
Peter Beerli at 16:58, 14 October 2015
2015-10-14T16:58:27Z
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<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 16:58, 14 October 2015</td>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># Can you run the program '''rb''' from your console in the tutorial directory? If not we may need to adjust the path to the executable, access to the dynamic library, etc. for macs look at the installation README, for local UNIX machines you need to establish a link to the binary; for windows : I hope that it works out of the box, because I will not be able to help.</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div># Can you run the program '''rb''' from your console in the tutorial directory? If not we may need to adjust the path to the executable, access to the dynamic library, etc. for macs look at the installation README, for local UNIX machines you need to establish a link to the binary; for windows : I hope that it works out of the box, because I will not be able to help.</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div># We explore RevBayes using the tutorial labeled '''RB_CTMC_Tutorial''' and in that directory we will use the tutorial that uses the Jukes-Cantor mutation model in detail. We will explore several concepts of RevBayes on the way (use the tutorial text [[Media:RB_CTMC_Tutorial_oct2015.pdf | RB_CTMC_Tutorial_oct2015.pdf]]</div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div># We explore RevBayes using the tutorial labeled '''RB_CTMC_Tutorial''' and in that directory we will use the tutorial that uses the Jukes-Cantor mutation model in detail. We will explore several concepts of RevBayes on the way (use the tutorial text [[Media:RB_CTMC_Tutorial_oct2015.pdf | RB_CTMC_Tutorial_oct2015.pdf]]<ins class="diffchange diffchange-inline">). In class we will go through all details and explore on the way, first action will be to start '''rb''' and then follow the tutorial.</ins></div></td></tr>
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Peter Beerli
http://www.peterbeerli.com/classes/index.php?title=RevBayesTutorial&diff=780&oldid=prev
Peter Beerli at 16:56, 14 October 2015
2015-10-14T16:56:18Z
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<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 16:56, 14 October 2015</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l1" >Line 1:</td>
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<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div> </div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins class="diffchange diffchange-inline">= </ins>RevBayes Tutorial <ins class="diffchange diffchange-inline">=</ins></div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
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<tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l9" >Line 9:</td>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>We will explore a few basics things together, run a simple script from the tutorial and will explore a more complicated script [I will expand here before class]</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>We will explore a few basics things together, run a simple script from the tutorial and will explore a more complicated script [I will expand here before class]</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"># Can you run the program '''rb''' from your console in the tutorial directory? If not we may need to adjust the path to the executable, access to the dynamic library, etc. for macs look at the installation README, for local UNIX machines you need to establish a link to the binary; for windows : I hope that it works out of the box, because I will not be able to help.</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"># We explore RevBayes using the tutorial labeled '''RB_CTMC_Tutorial''' and in that directory we will use the tutorial that uses the Jukes-Cantor mutation model in detail. We will explore several concepts of RevBayes on the way (use the tutorial text [[Media:RB_CTMC_Tutorial_oct2015.pdf | RB_CTMC_Tutorial_oct2015.pdf]]</ins></div></td></tr>
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Peter Beerli
http://www.peterbeerli.com/classes/index.php?title=RevBayesTutorial&diff=779&oldid=prev
Peter Beerli at 14:54, 14 October 2015
2015-10-14T14:54:54Z
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<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 14:54, 14 October 2015</td>
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<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>Download the tutorial package from here: [http://peterbeerli.com/classdata/ISC5935ppg/revbayes_installdir.zip RevBayesInstalldir.zip]</div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>Download the <ins class="diffchange diffchange-inline">large </ins>tutorial package <ins class="diffchange diffchange-inline">(191MB) </ins>from here: </div></td></tr>
<tr><td class='diff-marker'>−</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>(This includes the help, tutorials and the binaries for mac and windows<del class="diffchange diffchange-inline">, if </del>you already have the binaries installed then use this [http://peterbeerli.com/classdata/ISC5935ppg/revbayes_tutorials.zip RevBayesTutorials.zip])</div></td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins class="diffchange diffchange-inline">[http://peterbeerli.com/classdata/ISC5935ppg/revbayes_installdir.zip RevBayesInstalldir.zip at my personal website] or from here </ins>[http://peterbeerli.com/classdata/ISC5935ppg/revbayes_installdir.zip RevBayesInstalldir.zip <ins class="diffchange diffchange-inline">at the institutional website</ins>] <ins class="diffchange diffchange-inline"> </ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>(This includes the help, tutorials and the binaries for mac and windows<ins class="diffchange diffchange-inline">)</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div> </div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins class="diffchange diffchange-inline">'''If </ins>you already have the binaries installed then use this<ins class="diffchange diffchange-inline">''' </ins>[http://peterbeerli.com/classdata/ISC5935ppg/revbayes_tutorials.zip RevBayesTutorials.zip])</div></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>We will explore a few basics things together, run a simple script from the tutorial and will explore a more complicated script [I will expand here before class]</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>We will explore a few basics things together, run a simple script from the tutorial and will explore a more complicated script [I will expand here before class]</div></td></tr>
</table>
Peter Beerli
http://www.peterbeerli.com/classes/index.php?title=RevBayesTutorial&diff=778&oldid=prev
Peter Beerli at 14:19, 14 October 2015
2015-10-14T14:19:31Z
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<td colspan="2" style="background-color: #fff; color: #222; text-align: center;">Revision as of 14:19, 14 October 2015</td>
</tr><tr><td colspan="2" class="diff-lineno" id="mw-diff-left-l3" >Line 3:</td>
<td colspan="2" class="diff-lineno">Line 3:</td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"></td></tr>
<tr><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Download the tutorial package from here: [http://peterbeerli.com/classdata/ISC5935ppg/revbayes_installdir.zip RevBayesInstalldir.zip]</div></td><td class='diff-marker'> </td><td style="background-color: #f8f9fa; color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #eaecf0; vertical-align: top; white-space: pre-wrap;"><div>Download the tutorial package from here: [http://peterbeerli.com/classdata/ISC5935ppg/revbayes_installdir.zip RevBayesInstalldir.zip]</div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">(This includes the help, tutorials and the binaries for mac and windows, if you already have the binaries installed then use this [http://peterbeerli.com/classdata/ISC5935ppg/revbayes_tutorials.zip RevBayesTutorials.zip])</ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;"></ins></div></td></tr>
<tr><td colspan="2"> </td><td class='diff-marker'>+</td><td style="color: #222; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div><ins style="font-weight: bold; text-decoration: none;">We will explore a few basics things together, run a simple script from the tutorial and will explore a more complicated script [I will expand here before class]</ins></div></td></tr>
</table>
Peter Beerli
http://www.peterbeerli.com/classes/index.php?title=RevBayesTutorial&diff=777&oldid=prev
Peter Beerli: Created page with "RevBayes Tutorial Download the tutorial package from here: [http://peterbeerli.com/classdata/ISC5935ppg/revbayes_installdir.zip RevBayesInstalldir.zip]"
2015-10-14T14:14:04Z
<p>Created page with "RevBayes Tutorial Download the tutorial package from here: [http://peterbeerli.com/classdata/ISC5935ppg/revbayes_installdir.zip RevBayesInstalldir.zip]"</p>
<p><b>New page</b></p><div>RevBayes Tutorial<br />
<br />
<br />
Download the tutorial package from here: [http://peterbeerli.com/classdata/ISC5935ppg/revbayes_installdir.zip RevBayesInstalldir.zip]</div>
Peter Beerli