# HG changeset patch # User iuc # Date 1740082285 0 # Node ID 4e7fd03b0a13b217f9ee0edaf4bd9a92c2977ed8 # Parent 8a15b044f8902d17f9b9814b7d455a0c09eb4378 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/iqtree/ commit bfeaaf8691c2f88d4f6d888b4e739207afde1970 diff -r 8a15b044f890 -r 4e7fd03b0a13 iqtree.xml --- a/iqtree.xml Tue Oct 15 18:13:53 2024 +0000 +++ b/iqtree.xml Thu Feb 20 20:11:25 2025 +0000 @@ -888,10 +888,6 @@ IQ-TREE ======= -The full documentation can be found here_. - -.. _here : http://www.iqtree.org/doc/ - General Tutorial =================== @@ -941,11 +937,9 @@ Running example --------------------- -From the download_ there is an example alignment called `example.phy` +From the downloads there is an example alignment called `example.phy` in PHYLIP format. This example contains parts of the mitochondrial DNA sequences of several animals. -.. _download: http://www.iqtree.org/#download - You can now start to reconstruct a maximum-likelihood tree from this alignment by entering (assuming that you are now in the same folder with `example.phy`): @@ -1024,9 +1018,8 @@ Choosing the right substitution model ------------------------------------- -IQ-TREE will choose the best model for you automatically if specify any of the TEST models, but valid custom models can also be specified that conform to those found in Models_ page. +IQ-TREE will choose the best model for you automatically if specify any of the TEST models, but valid custom models can also be specified that conform to those found in Models page. -.. _Models: http://www.iqtree.org/doc/Substitution-Models#binary-and-morphological-models ------------------------------ diff -r 8a15b044f890 -r 4e7fd03b0a13 iqtree_macros.xml --- a/iqtree_macros.xml Tue Oct 15 18:13:53 2024 +0000 +++ b/iqtree_macros.xml Thu Feb 20 20:11:25 2025 +0000 @@ -1,5 +1,5 @@ - 2.3.6 + 2.4.0 0