[phylocom-user] Input files

Cam Webb cwebb at oeb.harvard.edu
Thu Jul 19 02:51:56 PDT 2012


Hi Trinity,

I checked the files and there were 4 errors:

* no trailing return character in sample
* a negative BL in the phylo
* mismatching labels between sample and phylo (tu1 != tu01)
* taxa tu13, ti11, tu46 in sample not in phylo file

The attached should now run for you.

Best,

Cam


On Mon, 16 Jul 2012, Trinity Hamilton wrote:

> Hello-
> 
> I am currently having trouble getting phylocom to run with my input files. I
> am just trying comstruct and am using a mac. (./phylocom comstruct >
> results.xls). I get "Bus error: 10" and an empty results file. I am looking
> at 16S data with abundance of representative OTUs. I am attaching my sample,
> phylo and traits files. I changed the sample file to 1 for presence, it was
> originally an abundance number but either way I get the same Bus error and
> an empty results.xls. I had also done the same with the traits file and
> again, the same result. Also, when I run the example files. the program runs
> fine. I am attaching my sample, traits and phylo files. I am sure it is
> something very simple that I am missing and really appreciate any help.
> 
> Thank you,
> 
> Trinity
> 
> Trinity L Hamilton
> Penn State Astrobiology Research Center
> Geosciences Department
> 211 Deike Building
> Pennsylvania State University
> University Park, PA 16802
> tlh42 at psu.edu
> 
> 
> 
>
-------------- next part --------------
da5	513	tu01
da5	82	tu02
jh11	83	tu01
jh11	44	tu02
jh11	49	tu03
jh11	141	tu04
jh11	43	tu05
jh11	2	tu06
jh11	209	tu07
jh11	15	tu08
jh16	73	tu02
jh16	189	tu03
jh16	7	tu05
jh16	233	tu06
jh16	32	tu07
jh16	58	tu14
jh16	1	tu15
jh16	2	tu16
jh17	211	tu03
jh17	15	tu06
jh17	366	tu07
jh17	3	tu08
jh18	379	tu03
jh18	10	tu06
jh18	13	tu08
jh19	1	tu02
jh19	4	tu03
jh19	5	tu06
jh19	570	tu07
jh19	1	tu17
jh2	405	tu03
jh2	21	tu07
jh2	169	tu08
jh2	1	tu15
jh20	9	tu02
jh20	501	tu03
jh20	8	tu07
jh20	77	tu08
jh20	1	tu20
jh25	8	tu03
jh25	6	tu06
jh25	562	tu07
jh25	2	tu08
jh25	1	tu17
jh3	12	tu03
jh3	2	tu07
jh3	582	tu08
jh30	23	tu03
jh30	6	tu09
jh30	482	tu10
jh30	50	tu20
jh30	35	tu22
jh32	1	tu02
jh32	188	tu03
jh32	16	tu05
jh32	1	tu07
jh32	4	tu09
jh32	1	tu14
jh32	286	tu15
jh32	40	tu18
jh32	5	tu25
jh32	2	tu27
jh32	1	tu29
jh37	1	tu02
jh37	20	tu03
jh37	5	tu09
jh37	1	tu15
jh37	554	tu20
jh37	13	tu22
jh37	1	tu27
jh37	1	tu31
jh5	1	tu02
jh5	3	tu08
jh5	588	tu09
jh5	4	tu31
jh55	94	tu03
jh55	1	tu07
jh55	458	tu08
jh55	1	tu15
jh55	38	tu17
jh55	2	tu18
jh55	1	tu19
jh6	492	tu03
jh6	6	tu07
jh6	98	tu08
tlh2	517	tu03
tlh2	17	tu04
tlh2	3	tu05
tlh2	51	tu15
tlh2	8	tu18
-------------- next part --------------
((((((tu01:0.00103,tu02:0.00428):0.03621,tu04:0.05416):0.01053,(tu05:0.02984,tu25:0.07935):0.00779):0.00719,tu31:0.09602):0.00599,((tu03:0.05288,tu08:0.07096):0.03942,(((((tu10:0.08368,tu20:0.08001):0.03827,tu22:0.16781):0.02057,((tu15:0.12019,tu18:0.20343):0.0171,((tu17:0.01924,tu19:0.0122):0.09777,tu27:0.1538):0.04918):0.00611):0.01493,tu16:0.18171):0.04372,tu29:0.12096):0.01234):0.03049):0.00116,((tu06:0.02856,(tu07:0.01212,tu11:0.01778):0.01111):0.03669,tu09:0.03504):0.01557,tu14:0.06239);


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