Shimming - Revision history

Aringh at 17:24, 9 December 2009

2009-12-09T17:24:02Z

Aringh at 17:17, 9 December 2009

2009-12-09T17:17:01Z

← Older revision		Revision as of 17:17, 9 December 2009
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	Also see the related topic on [[NESG:DeuteriumDecoupling#1D_Deuterium_Spectrum\|directly observing deuterium]].		Also see the related topic on [[NESG:DeuteriumDecoupling#1D_Deuterium_Spectrum\|directly observing deuterium]].

	== ~~Backgroung~~ Hardware Autoshim ==		== Background Hardware Autoshim ==

	Background hardware autoshim can only be active during acquisition. It starts with an acquisition start command (<tt>ga</tt>, <tt>go</tt> or <tt>au</tt>). This method is very useful for protein samples, whose B0 homogeneity is affected by continuous precipitation. It can also be useful for magnets with large drift rates, where large field corrections with Z0 coil introduce substantial Z1 perturbation.		Background hardware autoshim can only be active during acquisition. It starts with an acquisition start command (<tt>ga</tt>, <tt>go</tt> or <tt>au</tt>). This method is very useful for protein samples, whose B0 homogeneity is affected by continuous precipitation. It can also be useful for magnets with large drift rates, where large field corrections with Z0 coil introduce substantial Z1 perturbation.
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	Note that hardware autoshim is automatically switched off when other shim methods, like gradient shimming or software autoshim, are started. Check the <tt>hdwshim</tt> to see if hardware autoshim is still enabled.		Note that hardware autoshim is automatically switched off when other shim methods, like gradient shimming or software autoshim, are started. Check the <tt>hdwshim</tt> to see if hardware autoshim is still enabled.

	<br>		<br>

	== Sample Shimming on the FID ==		== Sample Shimming on the FID ==

Aringh at 17:14, 9 December 2009

2009-12-09T17:14:24Z

Alex at 18:25, 11 November 2009

2009-11-11T18:25:02Z

← Older revision		Revision as of 18:25, 11 November 2009
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	*For shigemi tubes with lower than optimal sample depth use <tt>gzsize = 3</tt>.		*For shigemi tubes with lower than optimal sample depth use <tt>gzsize = 3</tt>.

	Click on the '''Autoshim on Z''' button to start gradient shimming. Sample shimming will go on until rms error number is less than 1, or a maximum of 10 iterations is reached~~. [[NESG:GradientShimResult\|Example of converged gradient shimming]]~~.		Click on the '''Autoshim on Z''' button to start gradient shimming. Sample shimming will go on until rms error number is less than 1, or a maximum of 10 iterations is reached.

	Using higher-order shims with a low sample depth may decrease convergence - you may even end up with worse shims than that you started with. Save the current shims with <tt>svs</tt> before testing to see if using higher-order shims has any benefits.		Using higher-order shims with a low sample depth may decrease convergence - you may even end up with worse shims than that you started with. Save the current shims with <tt>svs</tt> before testing to see if using higher-order shims has any benefits.
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	Click on '''Quit''' button to exit gradient shimming mode and go back to your experiment set up.		Click on '''Quit''' button to exit gradient shimming mode and go back to your experiment set up.

	<br>		<br>

	=== Re-cabling for Gradient Shimming on Deuterium ===		=== Re-cabling for Gradient Shimming on Deuterium ===

Alex at 18:24, 11 November 2009

2009-11-11T18:24:11Z

← Older revision		Revision as of 18:24, 11 November 2009
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	This is the option of last resort if you don't have a lock substance in your sample.		This is the option of last resort if you don't have a lock substance in your sample.

	See '''Section 6.9. Using the Acquisition Window''' of the [http://www.varianinc.com/image/vimage/docs/products/nmr/apps/pubs/manuals/0199916000b.pdf Getting Started] manual of ~~[[Buffalo:~~VNMR~~\|VNMR]]~~ 6.1C for details		See '''Section 6.9. Using the Acquisition Window''' of the [http://www.varianinc.com/image/vimage/docs/products/nmr/apps/pubs/manuals/0199916000b.pdf Getting Started] manual of VNMR 6.1C for details

	<br>		<br>

Alex at 18:23, 11 November 2009

2009-11-11T18:23:45Z

← Older revision		Revision as of 18:23, 11 November 2009
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	The shims used in hardware autoshim are determine by the global <tt>hdwshimlist</tt> parameter. If <tt>hdwshimlist</tt> does not exist, autoshim will only use <tt>z1</tt>.		The shims used in hardware autoshim are determine by the global <tt>hdwshimlist</tt> parameter. If <tt>hdwshimlist</tt> does not exist, autoshim will only use <tt>z1</tt>.

	To create the <tt>hdwshimlist</tt> type <~~nowiki~~>		To create the <tt>hdwshimlist</tt> type <tt>create('hdwshimlist', 'string', 'global')</tt>
	create('hdwshimlist', 'string', 'global')
	</~~nowiki~~>

	You can set <tt>hdwshimlist</tt> to any combination of the following: <tt>z1</tt>, <tt>z1c</tt>, <tt>z2</tt>, <tt>z2c</tt>, <tt>x1</tt>, <tt>y1</tt>. The order is irrelevant. Using coarse shims (<tt>z1c</tt> and <tt>z2c</tt>) is not recommended. Examples:		You can set <tt>hdwshimlist</tt> to any combination of the following: <tt>z1</tt>, <tt>z1c</tt>, <tt>z2</tt>, <tt>z2c</tt>, <tt>x1</tt>, <tt>y1</tt>. The order is irrelevant. Using coarse shims (<tt>z1c</tt> and <tt>z2c</tt>) is not recommended. Examples:
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	Note that hardware autoshim is automatically switched off when other shim methods, like gradient shimming or software autoshim, are started. Check the <tt>hdwshim</tt> to see if hardware autoshim is still enabled.		Note that hardware autoshim is automatically switched off when other shim methods, like gradient shimming or software autoshim, are started. Check the <tt>hdwshim</tt> to see if hardware autoshim is still enabled.

	<br>		<br>

	== Sample Shimming on the FID ==		== Sample Shimming on the FID ==

Alex at 18:22, 11 November 2009

2009-11-11T18:22:41Z

← Older revision		Revision as of 18:22, 11 November 2009
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	#Connect this cable to the "PROBE" port on the bradband preamp, as indicated by the red arrow (the left side of the magnet leg).		#Connect this cable to the "PROBE" port on the bradband preamp, as indicated by the red arrow (the left side of the magnet leg).

	Also see the related topic on [[NESG:DeuteriumDecoupling#1D_Deuterium_Spectrum\|directly observing deuterium]].		Also see the related topic on [[NESG:DeuteriumDecoupling#1D_Deuterium_Spectrum\|directly observing deuterium]].

	~~<img src="%ATTACHURLPATH%/gradshim5.jpg" alt="gradshim5.jpg" width='360' height='240' /> <img src="%ATTACHURLPATH%/gradshim6.jpg" alt="gradshim6.jpg" width='600' height='240' />~~

	== Backgroung Hardware Autoshim ==		== Backgroung Hardware Autoshim ==

Alex at 18:21, 11 November 2009

2009-11-11T18:21:15Z

← Older revision		Revision as of 18:21, 11 November 2009
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	#Type <tt>dps</tt> or <tt>tn?</tt> to confirm that you have the dataset configured for 1H. Otherwise select 1H gradien shimming by clicking on the '''PFG H1''' button in the '''Acquire''' -> '''Gradient Shim''' tab in VNMRJ.		#Type <tt>dps</tt> or <tt>tn?</tt> to confirm that you have the dataset configured for 1H. Otherwise select 1H gradien shimming by clicking on the '''PFG H1''' button in the '''Acquire''' -> '''Gradient Shim''' tab in VNMRJ.
	#Check parameters <tt>pw</tt>, <tt>tpwr</tt>, <tt>gain</tt>, <tt>d3</tt>, <tt>d1</tt>, <tt>nt</tt> and <tt>ss</tt>. For aqueous protein samples <tt>pw</tt> should be 1 or 2 microseconds, and <tt>gain</tt> should be low (< 6, otherwise ADC overflow may occur).		#Check parameters <tt>pw</tt>, <tt>tpwr</tt>, <tt>gain</tt>, <tt>d3</tt>, <tt>d1</tt>, <tt>nt</tt> and <tt>ss</tt>. For aqueous protein samples <tt>pw</tt> should be 1 or 2 microseconds, and <tt>gain</tt> should be low (< 6, otherwise ADC overflow may occur).
	#Acquire test field profiles:		#Acquire test field profiles:
			#*In VNMRJ Click on '''Acquire Trial Spectra''' in the '''Acquire''' -> '''Gradient Shim''' tab
			#*In VNMR: Click on '''Set Params''' -> '''go, dssh'''. Click '''Return''' to get back to the main gmapz menu.

	**In VNMRJ Click on '''Acquire Trial Spectra''' in the '''Acquire''' -> '''Gradient Shim''' tab		To further minimize radiation damping it may be useful not to tune the probe before shimming.
	**In VNMR: Click on '''Set Params''' -> '''go, dssh'''. Click '''Return''' to get back to the main gmapz menu.
	*To further minimize radiation damping it may be useful not to tune the probe before shimming.

	~~<img src="%ATTACHURLPATH%/gmapsys~~.jpg~~" alt="gmapsys.jpg" width='828' height='229' />~~		[[Image:Gmapsys.jpg\|579x160px]]

	You should see two field profiles, the second one smaller than the first. If the shims are already quite good the profiles would be symmetric. Room-temperature probes typically yield hat-like profiles, while cryogenic probes yield more rectangular or trapeziodal profiles. The profile width is determined by the filling height.		You should see two field profiles, the second one smaller than the first. If the shims are already quite good the profiles would be symmetric. Room-temperature probes typically yield hat-like profiles, while cryogenic probes yield more rectangular or trapeziodal profiles. The profile width is determined by the filling height.
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	Some examples of bad field profiles:		Some examples of bad field profiles:

	*Noisy baseline and profile - ~~insifficient~~ SN, increase <tt>gain</tt> and/or <tt>pw</tt>.		*Noisy baseline and profile - insufficient SN, increase <tt>gain</tt> and/or <tt>pw</tt>.
	*Jagged baseline and profile - ADC overflow, decrease <tt>gain</tt> and/or <tt>pw</tt>.		*Jagged baseline and profile - ADC overflow, decrease <tt>gain</tt> and/or <tt>pw</tt>.
	*Rough left edge of the profile - Likely sample precipitation.		*Rough left edge of the profile - Likely sample precipitation.
	*Rough right edge of the profile - Likely bubbles in a shigemi tube under the plunger, eject sample and remove bubbles.		*Rough right edge of the profile - Likely bubbles in a shigemi tube under the plunger, eject sample and remove bubbles.

	For optimal performance the second profile should be about 50% lower than the first. This is controlled by the <tt>d3</tt> parameter, which sets the de-phasing time. This is an arrayed parameter: its first value is 0 and leads to the first profile, the second value is set to some delay and generates the second profile. If the starting shims are very good (this includes both axial and spinning shims!) and field homogeneity is high, then you need a longer delay to observe sufficient de-phasing. If, on the other hand, the starting shims are too far off, the de-phasing could be too large to be accurately quantified by the read-out gradient.		For optimal performance the second profile should be about 50% lower than the first. This is controlled by the <tt>d3</tt> parameter, which sets the de-phasing time. This is an arrayed parameter: its first value is 0 and leads to the first profile, the second value is set to some delay and generates the second profile. If the starting shims are very good (this includes both axial and spinning shims!) and field homogeneity is high, then you need a longer delay to observe sufficient de-phasing. If, on the other hand, the starting shims are too far off, the de-phasing could be too large to be accurately quantified by the read-out gradient.

	=== Creating Shim Maps ===		=== Creating Shim Maps ===

Alex at 18:18, 11 November 2009

2009-11-11T18:18:10Z

Alex at 18:16, 11 November 2009

2009-11-11T18:16:42Z

← Older revision		Revision as of 18:16, 11 November 2009
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	== Routine Shimming Procedure ==		== Routine Shimming Procedure ==

	#Retrieve the starting shims. This should be the closest set shims for your particular sample. e.g.:		#Retrieve the starting shims. This should be the closest set shims for your particular sample. e.g.:
			#*Previous shims for the same sample.
	**Previous shims for the same sample.		#*Shims for a different sample of the same tube geometry and similar filling height.
	**Shims for a different sample of the same tube geometry and similar filling height.		#*Reference shims determined for a lineshape or doped water sample.
	**Reference shims determined for a lineshape or doped water sample.

	#Find and activate lock, while avoiding its saturation.		#Find and activate lock, while avoiding its saturation.
	#Manually optimize <tt>Z1</tt> and <tt>Z2</tt> shims, then optimize <tt>X1</tt> and <tt>Y1</tt> shims.		#Manually optimize <tt>Z1</tt> and <tt>Z2</tt> shims, then optimize <tt>X1</tt> and <tt>Y1</tt> shims.

← Older revision		Revision as of 17:24, 9 December 2009
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	#Start <tt>gmapsys</tt> and set up 1H gradient shimming. Optimize parameters and generate a new shimmap if necessary. Run gradient shimming with the appropriate <tt>gzsize</tt> setting. You can use a smaller <tt>gzsize</tt> value at this step.		#Start <tt>gmapsys</tt> and set up 1H gradient shimming. Optimize parameters and generate a new shimmap if necessary. Run gradient shimming with the appropriate <tt>gzsize</tt> setting. You can use a smaller <tt>gzsize</tt> value at this step.
	#Manually optimize <tt>X1</tt> and <tt>Y1</tt> shims, then optimize <tt>XZ</tt> and <tt>YZ</tt> shims.		#Manually optimize <tt>X1</tt> and <tt>Y1</tt> shims, then optimize <tt>XZ</tt> and <tt>YZ</tt> shims.
	#Repeat step 4 with the ~~optimial~~ <tt>gzsize</tt> setting.		#Repeat step 4 with the optimal <tt>gzsize</tt> setting.

	== Storing and Retrieving Shims ==		== Storing and Retrieving Shims ==
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	#Make coarse adjustments of Z1, Z2, X, and Y shims as described above.		#Make coarse adjustments of Z1, Z2, X, and Y shims as described above.
	#Load <tt>gmapz</tt> dataset by typing <tt>gmapsys</tt>.		#Load <tt>gmapz</tt> dataset by typing <tt>gmapsys</tt>.
	#Type <tt>dps</tt> or <tt>tn?</tt> to confirm that you have the dataset configured for 1H. Otherwise select 1H ~~gradien~~ shimming by clicking on the '''PFG H1''' button in the '''Acquire''' -> '''Gradient Shim''' tab in VNMRJ.		#Type <tt>dps</tt> or <tt>tn?</tt> to confirm that you have the dataset configured for 1H. Otherwise select 1H gradient shimming by clicking on the '''PFG H1''' button in the '''Acquire''' -> '''Gradient Shim''' tab in VNMRJ.
	#Check parameters <tt>pw</tt>, <tt>tpwr</tt>, <tt>gain</tt>, <tt>d3</tt>, <tt>d1</tt>, <tt>nt</tt> and <tt>ss</tt>. For aqueous protein samples <tt>pw</tt> should be 1 or 2 microseconds, and <tt>gain</tt> should be low (< 6, otherwise ADC overflow may occur).		#Check parameters <tt>pw</tt>, <tt>tpwr</tt>, <tt>gain</tt>, <tt>d3</tt>, <tt>d1</tt>, <tt>nt</tt> and <tt>ss</tt>. For aqueous protein samples <tt>pw</tt> should be 1 or 2 microseconds, and <tt>gain</tt> should be low (< 6, otherwise ADC overflow may occur).
	#Acquire test field profiles:		#Acquire test field profiles:
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	[[Image:Gmapsys.jpg\|579x160px]]		[[Image:Gmapsys.jpg\|579x160px]]

	You should see two field profiles, the second one smaller than the first. If the shims are already quite good the profiles would be symmetric. Room-temperature probes typically yield hat-like profiles, while cryogenic probes yield more rectangular or ~~trapeziodal~~ profiles. The profile width is determined by the filling height.		You should see two field profiles, the second one smaller than the first. If the shims are already quite good the profiles would be symmetric. Room-temperature probes typically yield hat-like profiles, while cryogenic probes yield more rectangular or trapezoidal profiles. The profile width is determined by the filling height.

	Make sure that the profiles are smooth and have a high SN before proceeding.		Make sure that the profiles are smooth and have a high SN before proceeding.
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	#Disconnect the cable from the "PROBE J1" port on the lock switch (bottom right on the picture below)		#Disconnect the cable from the "PROBE J1" port on the lock switch (bottom right on the picture below)
	#Connect this cable to the "PROBE" port on the ~~bradband~~ preamp, as indicated by the red arrow (the left side of the magnet leg).		#Connect this cable to the "PROBE" port on the broadband preamp, as indicated by the red arrow (the left side of the magnet leg).

	Also see the related topic on [[NESG:DeuteriumDecoupling#1D_Deuterium_Spectrum\|directly observing deuterium]].		Also see the related topic on [[NESG:DeuteriumDecoupling#1D_Deuterium_Spectrum\|directly observing deuterium]].
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	To create the <tt>hdwshimlist</tt> type <tt>create('hdwshimlist', 'string', 'global')</tt>		To create the <tt>hdwshimlist</tt> type <tt>create('hdwshimlist', 'string', 'global')</tt>

	You can set <tt>hdwshimlist</tt> to any combination of the following: <tt>z1</tt>, <tt>z1c</tt>, <tt>z2</tt>, <tt>z2c</tt>, <tt>x1</tt>, <tt>y1</tt>. The order is irrelevant. ~~Using~~ coarse shims (<tt>z1c</tt> and <tt>z2c</tt>) is not recommended. Examples:		You can set <tt>hdwshimlist</tt> to any combination of the following: <tt>z1</tt>, <tt>z1c</tt>, <tt>z2</tt>, <tt>z2c</tt>, <tt>x1</tt>, <tt>y1</tt>. The order is irrelevant. However, use of coarse shims (<tt>z1c</tt> and <tt>z2c</tt>) is not recommended. Examples:

	*<tt>hdwshimlist='z1z2'</tt>		*<tt>hdwshimlist='z1z2'</tt>
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	Note that hardware autoshim is automatically switched off when other shim methods, like gradient shimming or software autoshim, are started. Check the <tt>hdwshim</tt> to see if hardware autoshim is still enabled.		Note that hardware autoshim is automatically switched off when other shim methods, like gradient shimming or software autoshim, are started. Check the <tt>hdwshim</tt> to see if hardware autoshim is still enabled.

	<br>		<br>

	== Sample Shimming on the FID ==		== Sample Shimming on the FID ==

← Older revision		Revision as of 17:14, 9 December 2009
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	The shim system is essentially a set of coils with specific field profiles in 3D space. There are three shimming methods: shimming on the lock level, shimming on the FID (or spectrum) and gradient shimming. ~~Sample shimming is a process of optimizing magnetic field homogeneity for recording high resolution spectra.~~ The currents in shim coils are ~~chosen~~ to cancel any magnetic gradients in the NMR sample as accurately as possible.		Sample shimming is a process of optimizing magnetic field homogeneity for recording high resolution spectra. The shim system is essentially a set of coils with specific field profiles in 3D space. There are three shimming methods: shimming on the lock level, shimming on the FID (or spectrum) and gradient shimming.  The currents in the shim coils are adjusted to cancel any unwanted magnetic field gradients across the NMR sample as accurately as possible.

	== Routine Shimming ~~Procedure~~ ==		== Routine Shimming Protocol ==

	#Retrieve the starting shims. This should be the closest set shims for your particular sample. e.g.:		#Retrieve the starting shims. This should be the closest set shims for your particular sample. e.g.:
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	== Storing and Retrieving Shims ==		== Storing and Retrieving Shims ==

	To save current shim parameters type		To save current shim parameters in a shim file named 'myshims', type in the command prompt

	<tt>svs('myshims')</tt>		<tt>svs('myshims')</tt>
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	<tt>rts('myshims')<br> su </tt>		<tt>rts('myshims')<br> su </tt>

	The <tt>rts</tt> command only loads the shim values into VNMR or VNMRJ. The <tt>su</tt> command is needed to send the new shim values to the shim unit. you ~~will~~ likely see the lock level ~~change~~ as the new shims are applied. See also information on the <tt>load</tt> parameter.		The <tt>rts</tt> command only loads the shim values into VNMR or VNMRJ. The <tt>su</tt> command is needed to send the new shim values to the shim unit. you are likely see a change in the lock level as the new shims are applied. See also information on the <tt>load</tt> parameter.

	It may be a good idea to load old shim parameters before shimming. For example, you want to acquire a ~~spectrum on a sample in~~ shigemi tube, but someone before you was using a ~~sample in~~ regular NMR in the same spectrometer. If you have shim parameters saved from an earlier measurement on the same sample, it is better to load those, since they are likely a much closer match.		It may be a good idea to load old shim parameters before shimming. For example, if you want to acquire using a shigemi tube, but someone before you was using a regular NMR tube in the same spectrometer, loading old shim parameters should make the shimming easier. If you have shim parameters saved from an earlier measurement on the same sample, it is better to load those, since they are likely to be a much closer match.

	== Manual shimming on the lock ==		== Manual shimming on the lock ==

	Adjusting shim values ~~while aiming~~ to maximize the lock level is called shimming on the lock. As the name suggests, you need to have your sample locked for this procedure. Make sure the lock resonance is not saturated. The entire procedure is complex, and is described in '''Section 6.9. Using the Acquisition Window''' of the [http://www.varianinc.com/image/vimage/docs/products/nmr/apps/pubs/manuals/0199916000b.pdf VNMR 6.1C Getting Started] manual and '''Section 3.10. Shimming on the Lock Signal Manually''' of [http://www.varianinc.com/image/vimage/docs/products/nmr/apps/pubs/manuals/0199931300b.pdf VNMRJ Liquids NMR User Guide]		Adjusting shim values to maximize the lock level is called shimming on the lock. As the name suggests, you need to have your sample locked for this procedure. Make sure the lock resonance is not saturated. The entire procedure is complex, and is described in '''Section 6.9. Using the Acquisition Window''' of the [http://www.varianinc.com/image/vimage/docs/products/nmr/apps/pubs/manuals/0199916000b.pdf VNMR 6.1C Getting Started] manual and '''Section 3.10. Shimming on the Lock Signal Manually''' of [http://www.varianinc.com/image/vimage/docs/products/nmr/apps/pubs/manuals/0199931300b.pdf VNMRJ Liquids NMR User Guide]

	A routine procedure for any sample:		A routine procedure for any sample:
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	*Rough right edge of the profile - Likely bubbles in a shigemi tube under the plunger, eject sample and remove bubbles.		*Rough right edge of the profile - Likely bubbles in a shigemi tube under the plunger, eject sample and remove bubbles.

	For optimal performance the second profile should be about 50% lower than the first. This is controlled by the <tt>d3</tt> parameter, which sets the de-phasing time. This is an arrayed parameter: its first value is 0 and leads to the first profile, the second value is set to some delay and generates the second profile. If the starting shims are very good (this includes both axial and spinning shims!) and field homogeneity is high, then you need a longer delay to observe sufficient de-phasing. If, on the other hand, the starting shims are too far off, the de-phasing could be too large to be accurately quantified by the read-out gradient.		For optimal performance the second profile should be about 50% lower than the first. This is controlled by the <tt>d3</tt> parameter, which sets the de-phasing time. This is an arrayed parameter: its first value is 0 and leads to the first profile, the second value is set to some delay and generates the second profile. If the starting shims are very good (this includes both axial and spinning shims!) and field homogeneity is high, then you need a longer delay to observe sufficient de-phasing. If, on the other hand, the starting shims are too far off, the de-phasing could be too large to be accurately quantified by the read-out gradient.

	=== Creating Shim Maps ===		=== Creating Shim Maps ===
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	First set <tt>gzsize</tt> to select the order of Z shims to be used:		First set <tt>gzsize</tt> to select the order of Z shims to be used:

	*For large sample depths (e.g. in a regular tube) set <tt>gzsize = 5</tt>. If ~~parameter~~ <tt>gmap_z1z4 = 'y'</tt> the first iterations will be carried out with Z1-Z4 shims and then with Z1-Z5 shims.		*For large sample depths (e.g. in a regular tube) set <tt>gzsize = 5</tt>. If <tt>gmap_z1z4 = 'y'</tt> the first iterations will be carried out with Z1-Z4 shims and then with Z1-Z5 shims.
	*For shigemi tubes with optimal sample volume (250-300 ul) set <tt>gzsize = 4</tt>.		*For shigemi tubes with optimal sample volume (250-300 ul) set <tt>gzsize = 4</tt>.
	*For shigemi tubes with lower than optimal sample depth use <tt>gzsize = 3</tt>.		*For shigemi tubes with lower than optimal sample depth use <tt>gzsize = 3</tt>.

	Click on the '''Autoshim on Z''' button to start gradient shimming. Sample shimming will go on until rms error number is less than 1, or a maximum of 10 iterations is reached.		Click on the '''Autoshim on Z''' button to start gradient shimming. Sample shimming will go on until rms error number is less than 1, or until maximum number of iterations (generally 5) are reached.

	Using higher-order shims with a low sample depth may decrease convergence - you may even end up with worse shims than that you started with. Save the current shims with <tt>svs</tt> before testing to see if using higher-order shims has any benefits.		Using higher-order shims with a low sample depth may decrease convergence - you may even end up with worse shims than that you started with. Save the current shims with <tt>svs</tt> before testing to see if using higher-order shims has any benefits.
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	Click on '''Quit''' button to exit gradient shimming mode and go back to your experiment set up.		Click on '''Quit''' button to exit gradient shimming mode and go back to your experiment set up.

	<br>		<br>

	=== Re-cabling for Gradient Shimming on Deuterium ===		=== Re-cabling for Gradient Shimming on Deuterium ===
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	#Connect this cable to the "PROBE" port on the bradband preamp, as indicated by the red arrow (the left side of the magnet leg).		#Connect this cable to the "PROBE" port on the bradband preamp, as indicated by the red arrow (the left side of the magnet leg).

	Also see the related topic on [[NESG:DeuteriumDecoupling#1D_Deuterium_Spectrum\|directly observing deuterium]].		Also see the related topic on [[NESG:DeuteriumDecoupling#1D_Deuterium_Spectrum\|directly observing deuterium]].

	== Backgroung Hardware Autoshim ==		== Backgroung Hardware Autoshim ==
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	Note that hardware autoshim is automatically switched off when other shim methods, like gradient shimming or software autoshim, are started. Check the <tt>hdwshim</tt> to see if hardware autoshim is still enabled.		Note that hardware autoshim is automatically switched off when other shim methods, like gradient shimming or software autoshim, are started. Check the <tt>hdwshim</tt> to see if hardware autoshim is still enabled.

	<br>		<br>

	== Sample Shimming on the FID ==		== Sample Shimming on the FID ==

← Older revision		Revision as of 18:18, 11 November 2009
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	#Repeat step 4 with the optimial <tt>gzsize</tt> setting.		#Repeat step 4 with the optimial <tt>gzsize</tt> setting.

	~~== Detailed information ==~~		== Storing and Retrieving Shims ==

	=== Storing and Retrieving Shims ===

	To save current shim parameters type		To save current shim parameters type
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	It may be a good idea to load old shim parameters before shimming. For example, you want to acquire a spectrum on a sample in shigemi tube, but someone before you was using a sample in regular NMR in the same spectrometer. If you have shim parameters saved from an earlier measurement on the same sample, it is better to load those, since they are likely a much closer match.		It may be a good idea to load old shim parameters before shimming. For example, you want to acquire a spectrum on a sample in shigemi tube, but someone before you was using a sample in regular NMR in the same spectrometer. If you have shim parameters saved from an earlier measurement on the same sample, it is better to load those, since they are likely a much closer match.

	=== Manual shimming on the lock ===		== Manual shimming on the lock ==

	Adjusting shim values while aiming to maximize the lock level is called shimming on the lock. As the name suggests, you need to have your sample locked for this procedure. Make sure the lock resonance is not saturated. The entire procedure is complex, and is described in '''Section 6.9. Using the Acquisition Window''' of the [http://www.varianinc.com/image/vimage/docs/products/nmr/apps/pubs/manuals/0199916000b.pdf VNMR 6.1C Getting Started] manual and '''Section 3.10. Shimming on the Lock Signal Manually''' of [http://www.varianinc.com/image/vimage/docs/products/nmr/apps/pubs/manuals/0199931300b.pdf VNMRJ Liquids NMR User Guide]		Adjusting shim values while aiming to maximize the lock level is called shimming on the lock. As the name suggests, you need to have your sample locked for this procedure. Make sure the lock resonance is not saturated. The entire procedure is complex, and is described in '''Section 6.9. Using the Acquisition Window''' of the [http://www.varianinc.com/image/vimage/docs/products/nmr/apps/pubs/manuals/0199916000b.pdf VNMR 6.1C Getting Started] manual and '''Section 3.10. Shimming on the Lock Signal Manually''' of [http://www.varianinc.com/image/vimage/docs/products/nmr/apps/pubs/manuals/0199931300b.pdf VNMRJ Liquids NMR User Guide]
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	Shimming of higher-order spinning shims is usually only done for standard lineshape samples.		Shimming of higher-order spinning shims is usually only done for standard lineshape samples.

	=== Gradient Shimming ===		== Gradient Shimming ==

	In gradient shimming, like in MRI, gradients are used to probe the field profile within the sample. For that you need a single strong signal in your sample. For protein samples this is usually the H2O resonance. (In principle, gradient shimming can be done with any solvent, and even run on deuterium resonances). On our spectrometers gradient shimming only adjusts Z-shims (on some spectrometers with XYZ-gradient probes it is possible to use gradient shimming for all X-, Y- and Z-shims).		In gradient shimming, like in MRI, gradients are used to probe the field profile within the sample. For that you need a single strong signal in your sample. For protein samples this is usually the H2O resonance. (In principle, gradient shimming can be done with any solvent, and even run on deuterium resonances). On our spectrometers gradient shimming only adjusts Z-shims (on some spectrometers with XYZ-gradient probes it is possible to use gradient shimming for all X-, Y- and Z-shims).
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	The procedure for gradient shimming is documented in the '''Section 11.6. Gradient Sample Shimming''' of [http://www.varianinc.com/image/vimage/docs/products/nmr/apps/pubs/manuals/0199916100c.pdf User's Guide: Liquids NMR]		The procedure for gradient shimming is documented in the '''Section 11.6. Gradient Sample Shimming''' of [http://www.varianinc.com/image/vimage/docs/products/nmr/apps/pubs/manuals/0199916100c.pdf User's Guide: Liquids NMR]

	==== Initial Setup and Parameter Optimization ====		=== Initial Setup and Parameter Optimization ===

	#Make sure that your sample is locked and lock signal is not saturated.		#Make sure that your sample is locked and lock signal is not saturated.
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	For optimal performance the second profile should be about 50% lower than the first. This is controlled by the <tt>d3</tt> parameter, which sets the de-phasing time. This is an arrayed parameter: its first value is 0 and leads to the first profile, the second value is set to some delay and generates the second profile. If the starting shims are very good (this includes both axial and spinning shims!) and field homogeneity is high, then you need a longer delay to observe sufficient de-phasing. If, on the other hand, the starting shims are too far off, the de-phasing could be too large to be accurately quantified by the read-out gradient.		For optimal performance the second profile should be about 50% lower than the first. This is controlled by the <tt>d3</tt> parameter, which sets the de-phasing time. This is an arrayed parameter: its first value is 0 and leads to the first profile, the second value is set to some delay and generates the second profile. If the starting shims are very good (this includes both axial and spinning shims!) and field homogeneity is high, then you need a longer delay to observe sufficient de-phasing. If, on the other hand, the starting shims are too far off, the de-phasing could be too large to be accurately quantified by the read-out gradient.

	==== Creating Shim Maps ====		=== Creating Shim Maps ===

	*Set <tt>gzsize = 5</tt> to select shims Z1 through Z5. Even though you may omit Z5 in subsequent gradient shimming, it is worth to have a map for it in the first place.		*Set <tt>gzsize = 5</tt> to select shims Z1 through Z5. Even though you may omit Z5 in subsequent gradient shimming, it is worth to have a map for it in the first place.
	*Click '''Shim Maps''' -> '''Automake Shimmap''' to run automatic shim mapping. Give a name to your shim map (usually includes your sample name and the date).		*Click '''Shim Maps''' -> '''Automake Shimmap''' to run automatic shim mapping. Give a name to your shim map (usually includes your sample name and the date).

	==== Manual Calculation of gzwin and tof (Optional) ====		=== Manual Calculation of gzwin and tof (Optional) ===

	The <tt>gzwin</tt> parameter determines the size of the spectral region used to optimize shims, and <tt>tof</tt> in this particular case describes how it is centered. This region ideally corresponds to the active sample volume and is normally calculated automatically when you click on '''Set Params''' -> '''Find gzwin''', or '''Shim Maps''' -> '''Automake Shimmap'''.		The <tt>gzwin</tt> parameter determines the size of the spectral region used to optimize shims, and <tt>tof</tt> in this particular case describes how it is centered. This region ideally corresponds to the active sample volume and is normally calculated automatically when you click on '''Set Params''' -> '''Find gzwin''', or '''Shim Maps''' -> '''Automake Shimmap'''.
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	*Click on '''Return''' -> '''Display''' -> '''Display Shimmap''' ([[NESG:DisplayShimMaps\|Shim map example]])		*Click on '''Return''' -> '''Display''' -> '''Display Shimmap''' ([[NESG:DisplayShimMaps\|Shim map example]])

	==== Gradient Sample Shimming ====		=== Gradient Sample Shimming ===

	First set <tt>gzsize</tt> to select the order of Z shims to be used:		First set <tt>gzsize</tt> to select the order of Z shims to be used:
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	<br>		<br>

	==== Re-cabling for Gradient Shimming on Deuterium ====		=== Re-cabling for Gradient Shimming on Deuterium ===

	The 500 MHz instrument in Buffalo has a relay, which allows gradient shimming on 2H without switching cables.		The 500 MHz instrument in Buffalo has a relay, which allows gradient shimming on 2H without switching cables.
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	<img src="%ATTACHURLPATH%/gradshim5.jpg" alt="gradshim5.jpg" width='360' height='240' /> <img src="%ATTACHURLPATH%/gradshim6.jpg" alt="gradshim6.jpg" width='600' height='240' />		<img src="%ATTACHURLPATH%/gradshim5.jpg" alt="gradshim5.jpg" width='360' height='240' /> <img src="%ATTACHURLPATH%/gradshim6.jpg" alt="gradshim6.jpg" width='600' height='240' />

	=== Backgroung Hardware Autoshim ===		== Backgroung Hardware Autoshim ==

	Background hardware autoshim can only be active during acquisition. It starts with an acquisition start command (<tt>ga</tt>, <tt>go</tt> or <tt>au</tt>). This method is very useful for protein samples, whose B0 homogeneity is affected by continuous precipitation. It can also be useful for magnets with large drift rates, where large field corrections with Z0 coil introduce substantial Z1 perturbation.		Background hardware autoshim can only be active during acquisition. It starts with an acquisition start command (<tt>ga</tt>, <tt>go</tt> or <tt>au</tt>). This method is very useful for protein samples, whose B0 homogeneity is affected by continuous precipitation. It can also be useful for magnets with large drift rates, where large field corrections with Z0 coil introduce substantial Z1 perturbation.
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	<br>		<br>

	=== Sample Shimming on the FID ===		== Sample Shimming on the FID ==

	This is the option of last resort if you don't have a lock substance in your sample.		This is the option of last resort if you don't have a lock substance in your sample.