|
Last change
on this file was
11886,
checked in by westram, 11 years ago
|
- reintegrates 'cleanup' into 'trunk'
- adds:
|
-
Property svn:eol-style set to
native
-
Property svn:keywords set to
Author Date Id Revision
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File size:
1007 bytes
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| Line | |
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| 1 | item:AxML + FastdnaML (max 500 Species) ... |
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| 2 | seqtype: N |
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| 3 | itemmeta: M |
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| 4 | itemmethod:(/bin/rm -f outfile infile treefile ;\ |
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| 5 | arb_export_rates --arb-notify "$RATES" "Y 1" "Q" "R" "G 0 0" "T 2.0" | GEN_FASTDNAML(infile) && \ |
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| 6 | ( arb_export_tree $TREE || STOP_ON_FAILURE(arb_export_tree '$TREE')) >>infile && \ |
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| 7 | RUN_IN_WINDOW((time arb_fastdnaml $PROGRAM && $DISPLAY_FUNC));\ |
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| 8 | /bin/rm -f TmpInputFile )& |
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| 9 | itemhelp:dnaml.help |
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| 10 | |
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| 11 | arg:RATES |
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| 12 | argtype:weights |
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| 13 | arglabel:Select a Weighting Mask |
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| 14 | argchoice:POS_VAR_BY_PARS |
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| 15 | |
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| 16 | arg:TREE |
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| 17 | argtype:tree |
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| 18 | arglabel:Base Tree |
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| 19 | argchoice: |
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| 20 | |
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| 21 | arg:PROGRAM |
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| 22 | argtype:choice_menu |
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| 23 | arglabel:Select program to use |
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| 24 | argchoice:AxML:axml |
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| 25 | argchoice:FastdnaML:fastdnaml |
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| 26 | |
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| 27 | arg:DISPLAY_FUNC |
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| 28 | argtype:choice_menu |
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| 29 | arglabel:What to do with the tree? |
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| 30 | argchoice:ARB ('tree_fml_//'):arb_read_tree tree_fml_$$ treefile "PRG=$PROGRAM BASETREE=$TREE FILTER=$FILTER RATE=$RATES PKG=olsen/felsenstein" |
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| 31 | argchoice:Treetool:treetool treefile |
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| 32 | |
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| 33 | |
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| 34 | in:TmpInputFile |
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| 35 | informat:genbank |
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| 36 | insave: |
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