Mercurial > repos > iuc > codeml
diff test-data/2_codeml.ctl @ 4:f9cb3a4339c2 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/codeml commit 6ecdbaa25d4cad3580baa17853ef546b6f975628"
| author | iuc |
|---|---|
| date | Sat, 27 Nov 2021 09:55:34 +0000 |
| parents | ba71e26d5bdc |
| children |
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--- a/test-data/2_codeml.ctl Wed Sep 16 16:46:06 2020 +0000 +++ b/test-data/2_codeml.ctl Sat Nov 27 09:55:34 2021 +0000 @@ -1,7 +1,7 @@ - seqfile = /tmp/tmpr0j4bmyj/files/000/dataset_12.dat * sequence data file name + seqfile = /tmp/tmpag83k3gw/files/2/6/2/dataset_262fd0d9-9018-4668-992c-0ed4943f9168.dat * sequence data file name outfile = run_codeml * main result file name - treefile = /tmp/tmpr0j4bmyj/files/000/dataset_13.dat * tree structure file name + treefile = /tmp/tmpag83k3gw/files/c/2/b/dataset_c2b7d4a1-033d-4bd9-92ba-ad7936f0c09a.dat * tree structure file name noisy = 9 * 0,1,2,3,9: how much rubbish on the screen verbose = 0 * 1: detailed output, 0: concise output runmode = 0 * 0: user tree; 1: semi-automatic; 2: automatic @@ -35,7 +35,7 @@ ncatG = 3 * # of categories in dG of NSsites models fix_rho = 1 * 0: estimate rho; 1: fix it at rho rho = 0.0 * initial or fixed rho, 0:no correlation - getSE = 0 * 0: don't want them, 1: want S.E.s of estimates + getSE = 0 * 0: dont want them, 1: want S.E.s of estimates RateAncestor = 1 * (0,1,2): rates (alpha>0) or ancestral states (1 or 2) Small_Diff = 5e-07 cleandata = 0 * remove sites with ambiguity data (1:yes, 0:no)?