[med-svn] [iqtree] 03/05: Create example script how to call iqtree

[Andreas Tille]

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tille pushed a commit to branch master
in repository iqtree.

commit 4b85998d4d4910749d29e28a014ed07571d8b4af
Author: Andreas Tille <tille at debian.org>
Date:   Tue Sep 8 16:53:42 2015 +0200

    Create example script how to call iqtree
---
 debian/Documents_source/create_example_script |  6 ++++++
 debian/Documents_source/example.sh            | 25 +++++++++++++++++++++++++
 2 files changed, 31 insertions(+)

diff --git a/debian/Documents_source/create_example_script b/debian/Documents_source/create_example_script
new file mode 100755
index 0000000..4e70f62
--- /dev/null
+++ b/debian/Documents_source/create_example_script
@@ -0,0 +1,6 @@
+#!/bin/sh
+grep example.phy iqtree-manual-1.0.tex | \
+   grep "^ *iqtree" | \
+   sed -e 's?example.phy?/usr/share/doc/iqtree/examples/&?' \
+       -e 's?example.nex?/usr/share/doc/iqtree/examples/&?' \
+  > example.sh
diff --git a/debian/Documents_source/example.sh b/debian/Documents_source/example.sh
new file mode 100644
index 0000000..3458968
--- /dev/null
+++ b/debian/Documents_source/example.sh
@@ -0,0 +1,25 @@
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -pre myprefix
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -nni1
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -m TEST
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -m TIM+I+G
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -m TESTONLY
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -pll -m GTR+G
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -m TIM+I+G -bb 1000
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -m TIM+I+G -b 100
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -m TIM+I+G -alrt 1000
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -m TIM+I+G -lbp 1000
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -m TIM+I+G -alrt 1000 -lbp 1000
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -m TIM+I+G -bb 1000 -alrt 1000 -lbp 1000
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -sp /usr/share/doc/iqtree/examples/example.nex
+  iqtree-omp -s /usr/share/doc/iqtree/examples/example.phy
+  iqtree-omp -s /usr/share/doc/iqtree/examples/example.phy -omp 2
+  iqtree-omp -s /usr/share/doc/iqtree/examples/example.phy -omp 3
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -z example.treels
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -z example.treels -n 1
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -z example.treels -n 1 -zb 1000
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -z example.treels -n 1 -zb 1000 -zw
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -m 010010+G
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -m mymodel+G
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -m 'TN{2.0,3.0}+G8{0.5}+I{0.15}'
+  iqtree -s /usr/share/doc/iqtree/examples/example.phy -m GTR+G+Fo

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