Dear Mark
I re-send on this adress.
Hoping some information
masaki YOSHIDA
On 18 Apr 2007, at 11:58, [log in to unmask] wrote:
> Dear Mark
>
> Thank you for your quick responce.
>
> re-installing cygwin with CD emmulater on your web and with
direct
> internet install, ''bc''not fonud log is always arrive like
this
> making bedpost directory copying files to bedpost directory
processing
> data on local host
> /usr/local/fsl/bin/bedpost_proc: line 95: bc: command not found
> /usr/local/fsl/bin/bedpost_proc: line 85: [: -lt: unary
operator
> expected
> 1 slices processed
> 1 slices processed
> 1 slices processed
> 1 slices processed
> 1 slices processed
> 1 slices processed
> 1 slices processed
> 1 slices processed
>
> bedpost never end with over 48h.
> It is not
> 1 slices processed
> 2 slices processed
> 3 slices processed
> 4 slices processed
> He calculate always 1 slices! never end..
> So there is no postmessage on cygwin.
>
> Where can I have fslerrormassage?
> I paste log0000.
>
> Log directory
>
is: /cygdrive/c/fsl_diff/Pt_katou/fsl12.bedpost/diff_slices/data_
> slice_0000
> ntpts=13
> nvoxels=94
> nparams=5
> nsamples=50
> 1,(data-retend).SumSquare()=146.644
> 2,(data-retend).SumSquare()=269.721
> 3,(data-retend).SumSquare()=79.73
> 4,(data-retend).SumSquare()=151.963
> 5,(data-retend).SumSquare()=101.992
> 6,(data-retend).SumSquare()=269.432
> 7,(data-retend).SumSquare()=168.977
> 8,(data-retend).SumSquare()=316.637
> 9,(data-retend).SumSquare()=165.257
> 10,(data-retend).SumSquare()=108.993
> 11,(data-retend).SumSquare()=97.5404
> 12,(data-retend).SumSquare()=185.958
> 13,(data-retend).SumSquare()=420.836
> 14,(data-retend).SumSquare()=398.428
> 15,(data-retend).SumSquare()=245.601
> 16,(data-retend).SumSquare()=337.218
> 17,(data-retend).SumSquare()=273.57
> 18,(data-retend).SumSquare()=535.768
> 19,(data-retend).SumSquare()=207.29
> 20,(data-retend).SumSquare()=186.927
> 21,(data-retend).SumSquare()=93.6067
> 22,(data-retend).SumSquare()=143.136
> 23,(data-retend).SumSquare()=316.376
> 24,(data-retend).SumSquare()=386.753
> 25,(data-retend).SumSquare()=448.359
> 26,(data-retend).SumSquare()=257.1
> 27,(data-retend).SumSquare()=423.599
> 28,(data-retend).SumSquare()=122.226
> 29,(data-retend).SumSquare()=479.854
> 30,(data-retend).SumSquare()=150.067
> 31,(data-retend).SumSquare()=131.874
> 32,(data-retend).SumSquare()=280.608
> 33,(data-retend).SumSquare()=327.025
> 34,(data-retend).SumSquare()=157.255
> 35,(data-retend).SumSquare()=212.046
> 36,(data-retend).SumSquare()=610.369
> 37,(data-retend).SumSquare()=361.963
> 38,(data-retend).SumSquare()=291.884
> 39,(data-retend).SumSquare()=321.553
> 40,(data-retend).SumSquare()=483.696
> 41,(data-retend).SumSquare()=211.981
> 42,(data-retend).SumSquare()=114.376
> 43,(data-retend).SumSquare()=352.68
> 44,(data-retend).SumSquare()=346.262
> 45,(data-retend).SumSquare()=609.868
> 46,(data-retend).SumSquare()=234.451
> 47,(data-retend).SumSquare()=80.0601
> 48,(data-retend).SumSquare()=545.949
> 49,(data-retend).SumSquare()=915.59
> 50,(data-retend).SumSquare()=389.277
> 51,(data-retend).SumSquare()=133.07
> 52,(data-retend).SumSquare()=873.432
> 53,(data-retend).SumSquare()=545.604
> 54,(data-retend).SumSquare()=91.8401
> 55,(data-retend).SumSquare()=245.739
> 56,(data-retend).SumSquare()=568.642
> 57,(data-retend).SumSquare()=1292.32
> 58,(data-retend).SumSquare()=859.638
> 59,(data-retend).SumSquare()=169.995
> 60,(data-retend).SumSquare()=154.067
> 61,(data-retend).SumSquare()=324.886
> 62,(data-retend).SumSquare()=537.77
> 63,(data-retend).SumSquare()=760.315
> 64,(data-retend).SumSquare()=552.161
> 65,(data-retend).SumSquare()=495.032
> 66,(data-retend).SumSquare()=336.829
> 67,(data-retend).SumSquare()=222.71
> 68,(data-retend).SumSquare()=468.783
> 69,(data-retend).SumSquare()=3096.78
> 70,(data-retend).SumSquare()=3158.61
> 71,(data-retend).SumSquare()=999.649
> 72,(data-retend).SumSquare()=277.501
> 73,(data-retend).SumSquare()=117.778
> 74,(data-retend).SumSquare()=262.769
> 75,(data-retend).SumSquare()=154.786
> 76,(data-retend).SumSquare()=364.812
> 77,(data-retend).SumSquare()=417.677
> 78,(data-retend).SumSquare()=147.083
> 79,(data-retend).SumSquare()=345.62
> 80,(data-retend).SumSquare()=2651.58
> 81,(data-retend).SumSquare()=1219.37
> 82,(data-retend).SumSquare()=6328.95
> 83,(data-retend).SumSquare()=1573.68
> 84,(data-retend).SumSquare()=428.161
> 85,(data-retend).SumSquare()=279.346
> 86,(data-retend).SumSquare()=615.548
> 87,(data-retend).SumSquare()=691.174
> 88,(data-retend).SumSquare()=5525.38
> 89,(data-retend).SumSquare()=2995.45
> 90,(data-retend).SumSquare()=3713.85
> 91,(data-retend).SumSquare()=4447.02
> 92,(data-retend).SumSquare()=487.821
> 93,(data-retend).SumSquare()=968.188
> 94,(data-retend).SumSquare()=1209.96
>
> Saving results... finished
>
> Log directory
>
was: /cygdrive/c/fsl_diff/Pt_katou/fsl12.bedpost/diff_slices/data
> _slice_0000
>
> Hoping some information
>
> masaki YOSHIDA
>
>
>
>
>> Hi,
>>
>> this looks like you have not installed cygwin correctly, as it
> cannot
>> find
>> the command called "bc". Did you follow the fsl-specific
>> instructions for installing cygwin? It is very important
that you
>> follow
> these
>> instructions
>> very carefully.
>>
>> If that is not the problem then please send us the output of
>> fslerrorreport and post the message to the FSL email list
rather than
>> to this address.
>>
>> All the best,
>> Mark
>>
>>
>>
>> On 18 Apr 2007, at 03:22, masaki yoshida wrote:
>>
>>> Dear FSL Owners
>>>
>>> I just begin DTI analysys with FDT on cygwin.
>>> Diffusion direction is 12.
>>> A result of Dtifit is pretty good with reasonable colored FA
> on
>>> FSLview.
>>> But when I run bedpost,
>>>
>>> $ bedpost fsl
>>> subjectdir is /cygdrive/c/test_fsl/Pt_katou_test_FSL/fsl
>>> making bedpost directory
>>> copying files to bedpost directory
>>> processing data on local host
>>> /usr/local/fsl/bin/bedpost_proc: line 95: bc: command not
> found
>>> /usr/local/fsl/bin/bedpost_proc: line 85: [: -lt: unary
> operator
>>> expected
>>> 1 slices processed
>>> 1 slices processed
>>> 1 slices processed
>>> 1 slices processed
>>> 1 slices processed
>>> 1 slices processed
>>>
>>> Slices never merge and .bedpost/diff_slices/ contain only
>>> data_slice_0000 after 48hours.
>>>
>>> A result ot bedpost_datacheck is
>>>
>>> data_type INT16
>>> dim1 80
>>> dim2 80
>>> dim3 50
>>> dim4 13
>>> datatype 4
>>> pixdim1 3.0000000000
>>> pixdim2 3.0000000000
>>> pixdim3 3.0000000000
>>> pixdim4 1.0000000000
>>> cal_max 473.0000
>>> cal_min 0.0000
>>> file_type NIFTI-1+
>>>
>>> fsl/nodif
>>> data_type INT16
>>> dim1 80
>>> dim2 80
>>> dim3 50
>>> dim4 1
>>> datatype 4
>>> pixdim1 3.0000000000
>>> pixdim2 3.0000000000
>>> pixdim3 3.0000000000
>>> pixdim4 1.0000000000
>>> cal_max 1989.0000
>>> cal_min 0.0000
>>> file_type NIFTI-1+
>>>
>>> fsl/nodif_brain_mask
>>> data_type INT16
>>> dim1 80
>>> dim2 80
>>> dim3 50
>>> dim4 1
>>> datatype 4
>>> pixdim1 3.0000000000
>>> pixdim2 3.0000000000
>>> pixdim3 3.0000000000
>>> pixdim4 1.0000000000
>>> cal_max 1.0000
>>> cal_min 0.0000
>>> file_type NIFTI-1+
>>>
>>> num lines in fsl/bvals
>>> 1
>>> num words in fsl/bvals
>>> 13
>>> num lines in fsl/bvecs
>>> 3
>>> num words in fsl/bvecs
>>> 39
>>> /usr/local/fsl/bin/bedpost_datacheck: line 45: bc: command
> not found
>>> /usr/local/fsl/bin/bedpost_datacheck: line 48: [: -ne:
> unary
>>> operator expected
>>> /usr/local/fsl/bin/bedpost_datacheck: line 54: [: -ne:
> unary
>>> operator expected
>>>
>>> Can I have a possibility?
>>> Hoping your advice
>>>
>>> Sinserly
>>>
>>>
>>> YOSHIDA masaki MD
>>> Department of Ophthalmology
>>> Jikei University School of Medicine
>>> 3-25-8 nishi-shinbashi Minato-Ku
>>> Tokyo 105-8461 Japan
>>> [log in to unmask]
>>>
>>
>>
>
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