Hi!
I'm a graduate student at Case Western Reserve University. I use a
BioSpec 70/30 under Linux running Paravision 3.0.2. An answer to this
question would make a huge improvement in my productivity, and it
would prevent me from needing to buy expensive 3rd party software like
MestRe-C to make decent plots.
I've been running PRESS experiments on mouse muscles with differing
TR, TE, OVS, and averages, and I'm trying to figure out what works
best. I display my spectra in XWIN-PLOT, I'd like to customize the
parameter list printed on the spectrum. Specifically I want
PVM_RepetitionTime, PVM_EchoTime, and PVM_NAverages to appear in that
list. I haven't been able to get those parameters to appear no matter
what I write in 'format.temp'. Does anyone know how to do this? It
always tells me "Undefined parameter in format file at line XX" where
XX is where I put PVM_RepetitionTime.
Can xwp_lp read the "method" file instead of just the "acqu" file?
What exactly does xwp_lp do? Is there a formal specification of the
'format.temp' file? I've read through the XWIN-PLOT and XWIN-NMR
manuals and they're not helpful. I'm concerned that the PVM fields
are not visible to XWIN-NMR so it might not be possible to do what I'm
asking for, despite the simplicity of this request. I can't imagine
that I'm the first to want to do this, but the Bruker knowledge base
isn't helpful either. Would the "relations" file help? It looks like
it's used for calculating formulas.
Here's an excerpt of "method". It's got a lot of useful information!
##TITLE=Parameter List
##JCAMPDX=4.24
##DATATYPE=Parameter Values
##ORIGIN=Bruker BioSpin MRI GmbH
##OWNER=nmrsu
$$ Thu Aug 10 12:25:34 2006 EDT (UT-4h) nmrsu
$$ /opt/PV3.0.2/data/nmrsu/nmr/A18_TG.CZ1/33/method
##$Method=PRESS
##$PVM_RepetitionTime=1500.000
##$PVM_EchoTime=60.000
##$PVM_NAverages=128
##$NDummyScans=3
##$PVM_TriggerModule=Off
$$ @vis= Method PVM_RepetitionTime PVM_EchoTime PVM_NAverages NDummyScans
##$PVM_TriggerDelay=200.000
##$PVM_ScanTimeStr=( 16 )
<0h3m16s500ms>
##$PVM_GeoMode=GeoLocMRS
##$TE1=30.00
##$TE2=30.00
..........................................
Here's an excerpt of "format.temp" which I wrote based on the
exam1d_1H example data set, which has a big parameter list in
XWIN-PLOT.
EDIT_PAR COMMAND FILE
DI_MODE LONG
ED_ENTRY ACQU
ORDER FILE
HEADER "F3 - My Parameters"
NAME BF4
TEXT " "
END
NAME RG
TEXT " "
END
NAME PVM_RepetitionTime
TEXT " "
END
..........................................
The "acqp" file has tags like BF4 and RG which I can cause to appear
on the XWIN-PLOT. The format looks almost the same as "method" but
xwp_lp doesn't seem to read "method" ever. "acqp" file excerpt:
##TITLE=Parameter List
##JCAMPDX=4.24
##DATATYPE=Parameter Values
##ORIGIN=Bruker BioSpin MRI GmbH
##OWNER=nmrsu
$$ Thu Aug 10 12:25:34 2006 EDT (UT-4h) nmrsu
$$ /opt/PV3.0.2/data/nmrsu/nmr/A18_TG.CZ1/33/acqp
##$PULPROG=( 16 )
<PRESS.ppg>
##$GRDPROG=( 16 )
<>
##$ACQ_experiment_mode=SingleExperiment
##$ACQ_user_filter=No
##$ACQ_DS_enabled=No
##$ACQ_dim=1
....................................................
I tried adding these lines from "method" to "acqp" but it doesn't help
##$PVM_RepetitionTime=1500.000
##$PVM_EchoTime=60.000
##$PVM_NAverages=128
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