Commit 8c4291a5 authored by Mathieu Giraud's avatar Mathieu Giraud

doc/algo.org: separate paragraph for 'make data ; make test'

parent 96f8eb1a
...@@ -140,11 +140,6 @@ sudo apt-get install g++-4.8 ...@@ -140,11 +140,6 @@ sudo apt-get install g++-4.8
** Installation ** Installation
#+BEGIN_SRC sh #+BEGIN_SRC sh
make data
# get some IGH rearrangements from a single individual, as described in:
# Boyd, S. D., and al. Individual variation in the germline Ig gene
# repertoire inferred from variable region gene rearrangements. J
# Immunol, 184(12), 6986–92.
make germline make germline
# get IMGT germline databases (IMGT/GENE-DB) -- you have to agree to IMGT license: # get IMGT germline databases (IMGT/GENE-DB) -- you have to agree to IMGT license:
...@@ -162,8 +157,6 @@ make # build Vijil from the sources (see the requirements, a ...@@ -162,8 +157,6 @@ make # build Vijil from the sources (see the requirements, a
wget http://bioinfo.lifl.fr/vidjil/vidjil-2015.10.2_x86_64 -O vidjil wget http://bioinfo.lifl.fr/vidjil/vidjil-2015.10.2_x86_64 -O vidjil
# download a static binary (built for x86_64 architectures) # download a static binary (built for x86_64 architectures)
make test # (optional) run self-tests (can take 5 to 60 minutes)
./vidjil -h # display help/usage ./vidjil -h # display help/usage
#+END_SRC #+END_SRC
...@@ -174,6 +167,20 @@ make CXXFLAGS='-std=c++11' ### gcc-4.8 ...@@ -174,6 +167,20 @@ make CXXFLAGS='-std=c++11' ### gcc-4.8
make CXXFLAGS='-std=c++11' LDFLAGS='-stdlib=libc++' ### OS X Mavericks make CXXFLAGS='-std=c++11' LDFLAGS='-stdlib=libc++' ### OS X Mavericks
#+END_SRC #+END_SRC
** Self-tests (optional)
You can run the tests with the following commands:
#+BEGIN_SRC sh
make data
# get IGH rearrangements from a single individual, as described in:
# Boyd, S. D., and al. Individual variation in the germline Ig gene
# repertoire inferred from variable region gene rearrangements. J
# Immunol, 184(12), 6986–92.
make test # ( run self-tests (can take 5 to 60 minutes)
#+END_SRC
* Input and parameters * Input and parameters
......
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