From: Edward d'Auvergne <edward@xxxxxxxxxxxxx>
To: Martin Ballaschk <ballaschk@xxxxxxxxxxxxx>
Cc: relax-users@xxxxxxx
Sent: Friday, March 23, 2012 10:11 AM
Subject: Re: Temperature calibration & relax
@ Mac OS X 10.7.3 „Lion“
Hi,
Sorry, I forgot to mention how you perform the temperature
calibration. It is mentioned at the end of one of the links I sent,
though it is quite buried. You essentially run one of the experiments
but scaled down to say ~20-30 min (just decrease the number of scans
or transients). This should be enough time for the system to be fully
stabilised, temperature wise. You have your MeOH in the spectrometer
during this and then, at the very end of the experiment, run a 90
proton pulse (I'm not sure how you do that on Bruker, but on Varian
you can queue the 2 experiments to run directly one after the other)
and then measure the H signal. You might also be able to play with
your phase cycling so that the MeOH signal is not cancelled but rather
added during the R2 and R1 experiments, and then you should have a row
of MeOH signal in your 2D.
Regards,
Edward
On 23
March 2012 11:09, Martin Ballaschk <
ballaschk@xxxxxxxxxxxxx> wrote:
> Dear relax-users,
>
> I am just beginning to record and analyze relaxation data for MF analysis. So far we collected data at 600 MHz, and a second data set at 750MHz is planned.
>
> I have two questions I hope you can help me with:
>
> 1) Temperature calibration
>
> We use single-scan interleaving to account for a constant temperature during the whole experimental series. We also use methanol to calibrate the spectrometer's temperature sensors. As we found out, every magnet is different and the on-screen parameters cannot be trusted. We have tables where This procedure is not done with the T2 measurements in mind, however.
>
> Isn't it also important that R1 and R2 measurements have the same temperature – how do you check
for that?
>
> How can I check differences in sample heating between different magnets due to different air-flow etc? How to compensate for these temperature differences? Do I need different pulse programs that account for temperature differences for every spectrometer? Or is the difference insignificant once the spectrometers have been calibrated?
>
>
> 2)
> In Mac OS X ("Lion", 10.7.3), the self-contained relax Application bundle is crashing and is giving just an "relax error" and the option to "terminate" or "open the Console".
>
> I can run the “relax” script which is sitting inside relax.app/Contents/Resources/ and I get a prompt, but only after installing numpy via Macports. If I don't, relax complains that numpy is not installed.
>
> After installing wxPython 2.9 via the official installer "./relax" -g is attempting to start (I can see the splash screen), but then halts with the
errors.
>
> Interestingly, I found out today that it seems to run just fine if I run the relax binary in Contents/MacOS by dropping it onto Terminal.app!
> (I did not test this without numpy and wXPython seperately installed.)
>
> What's your experience? What do you think is broken – my system (10.7) or something inside the application bundle?
>
>
>
> Cheers
> Martin
>
> ***
>
> RELAX ERROR MESSAGES FROM THE CONSOLE
>
> 15.03.12 15:19:15,538 relax: relax Error
> 15.03.12 15:19:17,667 com.apple.launchd.peruser.501:
> ([0x0-0x14e14e].com.nmr-relax.relax[70595]) Exited with code: 255
> 15.03.12 15:19:22,227 [0x0-0x14f14f].com.nmr-relax.relax: <_FuncPtr object at
> 0x101b0dc80>
> 15.03.12 15:19:22,227 [0x0-0x14f14f].com.nmr-relax.relax: Traceback (most
> recent call last):
> 15.03.12 15:19:22,227
[0x0-0x14f14f].com.nmr-relax.relax: File
> "/Applications/relax.app/Contents/Resources/__boot__.py", line 179, in
> <module>
> 15.03.12 15:19:22,227 [0x0-0x14f14f].com.nmr-relax.relax:
> _argv_emulation()
> 15.03.12 15:19:22,227 [0x0-0x14f14f].com.nmr-relax.relax: File
> "/Applications/relax.app/Contents/Resources/__boot__.py", line 177, in
> _argv_emulation
> 15.03.12 15:19:22,227 [0x0-0x14f14f].com.nmr-relax.relax:
> _get_argvemulator().mainloop()
> 15.03.12 15:19:22,227 [0x0-0x14f14f].com.nmr-relax.relax: File
> "/Applications/relax.app/Contents/Resources/__boot__.py", line 101, in
> mainloop
> 15.03.12 15:19:22,227 [0x0-0x14f14f].com.nmr-relax.relax: stoptime =
> Evt.TickCount() + timeout
> 15.03.12 15:19:22,227 [0x0-0x14f14f].com.nmr-relax.relax: AttributeError:
> 'module' object has no attribute
'TickCount'
>
> --
> Martin Ballaschk
> AG Schmieder
> Leibniz-Institut für Molekulare Pharmakologie
> Robert-Rössle-Str. 10
> 13125 Berlin
>
ballaschk@xxxxxxxxxxxxx> Tel.: +49-30-94793-234/315
> Büro: A 1.26
> Labor: C 1.10
>
>
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Re: Temperature calibration & relax @ Mac OS X 10.7.3 „Lion“