Mercurial > repos > peterjc > mira4_assembler
comparison tools/mira4/README.rst @ 12:a6a56440567c draft
Uploaded v0.0.2 preview 4, now using MIRA 4.0 (not RC), and sets MIRA4 environment variable during install.
| author | peterjc |
|---|---|
| date | Mon, 03 Feb 2014 06:25:35 -0500 |
| parents | 02350bef2e99 |
| children | 7fcabeeca5df |
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| 11:02350bef2e99 | 12:a6a56440567c |
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| 54 this to ``tools_conf.xml.sample`` in order to run the tests:: | 54 this to ``tools_conf.xml.sample`` in order to run the tests:: |
| 55 | 55 |
| 56 <tool file="mira4/mira4_de_novo.xml" /> | 56 <tool file="mira4/mira4_de_novo.xml" /> |
| 57 <tool file="mira4/mira4_mapping.xml" /> | 57 <tool file="mira4/mira4_mapping.xml" /> |
| 58 | 58 |
| 59 You will also need to install MIRA, we used version 4.0 RC5, and define the | 59 You will also need to install MIRA, we used version 4.0, and define the |
| 60 environment variable ``$MIRA4`` pointing at the folder containing the binaries. | 60 environment variable ``$MIRA4`` pointing at the folder containing the binaries. |
| 61 See: | 61 See: |
| 62 | 62 |
| 63 * http://chevreux.org/projects_mira.html | 63 * http://chevreux.org/projects_mira.html |
| 64 * http://sourceforge.net/projects/mira-assembler/ | 64 * http://sourceforge.net/projects/mira-assembler/ |
| 83 ======= ====================================================================== | 83 ======= ====================================================================== |
| 84 Version Changes | 84 Version Changes |
| 85 ------- ---------------------------------------------------------------------- | 85 ------- ---------------------------------------------------------------------- |
| 86 v0.0.1 - Initial version (prototype for MIRA 4.0 RC4, based on wrapper for v3.4) | 86 v0.0.1 - Initial version (prototype for MIRA 4.0 RC4, based on wrapper for v3.4) |
| 87 v0.0.2 - Include BAM output (using ``miraconvert`` and ``samtools``). | 87 v0.0.2 - Include BAM output (using ``miraconvert`` and ``samtools``). |
| 88 - Updated to target MIRA 4.0 RC5 | 88 - Updated to target MIRA 4.0 |
| 89 ======= ====================================================================== | 89 ======= ====================================================================== |
| 90 | 90 |
| 91 | 91 |
| 92 Developers | 92 Developers |
| 93 ========== | 93 ========== |