update of the docu including the SECTOR cmd.
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:tocdepth: 3
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.. include:: <isogrk1.txt>
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.. index:: user-libs
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.. _user-libs:
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Documentation of user libs (user functions)
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===========================================
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.. index:: BMW-libs
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.. _BMW-libs:
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Meissner-Profiles / Vortex-Lattice related functions (BMW libs)
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---------------------------------------------------------------
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.. index:: libFitPofB
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libFitPofB
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++++++++++
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Introduction
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^^^^^^^^^^^^
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``libFitPofB`` is a collection of ``C++`` classes using the ``musrfit`` :ref:`user-functions <user-functions>`
|
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interface in order to facilitate the usage in conjunction with ``musrfit``. The classes contained in this
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library generally implement calculations of one-dimensional static magnetic field distributions
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:math:`p(B)` which lead to the muon-spin depolarization functions
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.. math::
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|
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{\cal P}(t) = \int p(B) \cos(\gamma_\mu B t + \varphi) dB,
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where :math:`\gamma_\mu = 2 \pi \times 135.54` MHz/T is the gyromagnetic ratio of the muon and :math:`\varphi`
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is the initial phase of the muon spins with respect to the positron detector. At the moment the only available
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implementations deal with field distributions measured in local isotropic superconductors, either by means of
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low-energy |mgr|\SR (see `<https://www.psi.ch/smus/lem>`_) in the Meissner state or by bulk |mgr|\SR in the mixed state.
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In the following the basic usage of the library in ``musrfit`` is explained—the calculations by themselves are only
|
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outlined. For further information please refer to the original literature and/or the source code of the implementation.
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.. note::
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|
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In order to supply certain information needed for the calculations but not suited to be stored in the ``musrfit``
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msr files an ``XML`` configuration file in the working directory is used. For details, see below.
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|
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.. note::
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|
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The implementations in this library heavily rely on `FFTW3 <http://fftw.org/>`_. In principle, it always checks what
|
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is the best way to do efficient Fourier transforms for a given machine before the transforms are actually done. If
|
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repeatedly Fourier transforms of the same (sizable) length should be done, it might be worth storing the once
|
||||
obtained information in an external file and just load it the next time this information is needed
|
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(`wisdom handling <http://fftw.org/fftw3_doc/Wisdom.html>`_). In case this feature shall be used, a valid wisdom
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||||
file has to be specified in the ``XML`` file.
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|
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.. note::
|
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|
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The model functions described in the following do generally *not behave nicely* in conjunction with ``MINUIT``
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function minimizations (or maximizations). The analysis process at the moment in most cases involves some
|
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tedious trial-and-error procedure, where the displayed MINUIT information as always deserves attention.
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This is especially true if small effects should be analyzed (*e.g.* small diamagnetic shifts in superconductors).
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The parameter uncertainty in many cases has to be estimated independently. Due to these limitations, also
|
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the use of the fit option of ``msr2data`` *cannot* be advised.
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|
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.. note::
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|
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If these classes still prove useful and results obtained through them are part of scientific publications,
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an acknowledgment of the use of the library is appreciated.
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LE-|mgr|\SR
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^^^^^^^^^^^
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.. index:: 1D-London-Meissner
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One-dimensional London model for the Meissner state of isotropic superconductors
|
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""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""
|
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|
||||
The models for analyzing LE-|mgr|\SR data assume the magnetic induction :math:`B(z)` to vary only in the
|
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dimension parallel to the momentum of the incident muons. In such a case the magnetic field distribution is given by
|
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|
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.. math::
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|
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p(B) = n(z) \left| \frac{dB(z)}{dz} \right|^{-1}
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where :math:`n(z)` is the muon implantation profile simulated by ``TRIM.SP``.
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Assuming an array of *N* isotropic local superconductors with a total thickness *d* in the Meissner state
|
||||
the magnetic induction is given by solving the 1D London equation
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.. math::
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\frac{\partial^2}{\partial z^2}B_i(z) = \frac{1}{\lambda_i^2}B_i(z)
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|
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for each layer *i* taking into account the boundary conditions (F. London, Superfluids: Macroscopic Theory of Superconductivity, Dover (1961), p. 34)
|
||||
|
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.. math::
|
||||
|
||||
B_1(0) = B_N(d) = \mu_0H
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|
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B_i(d_i) = B_{i+1}(d_i)
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\lambda_i^2B_i'(z)\Big\vert_{z=d_i} = \lambda_{i+1}^2B_{i+1}'(z)\Big\vert_{z=d_i},
|
||||
|
||||
where the :math:`d_i` specify the interfaces between two adjacent layers and :math:`\lambda_i` is
|
||||
the magnetic field penetration depth in the constituent :math:`i`.
|
||||
|
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The calculation of the field distribution has been set up for a superconducting half-space as well
|
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as superconducting thin films with up to three superconducting layers with different penetration depths.
|
||||
The muon-spin depolarization functions are calculated using the following lines in the ``THEORY`` block
|
||||
of a ``musrfit`` msr file:
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|
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.. index:: TLondon1DHS
|
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|
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**Superconducting half-space**
|
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|
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::
|
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|
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userFcn libFitPofB TLondon1DHS 1 2 3 4 5
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The parameters are:
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|
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#. phase (deg)
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#. muon implantation energy as specified in the :ref:`XML startup <BMWlibs-XML>` file (keV)
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#. applied field (G)
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#. thickness of the dead layer (nm)
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#. magnetic field penetration depth (nm)
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|
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.. index:: TLondon1D1L
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|
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**Superconducting thin film (one layer)**
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|
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::
|
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|
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userFcn libFitPofB TLondon1D1L 1 2 3 4 5 6 [a b]
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|
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The mandatory parameters are:
|
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|
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#. phase (deg)
|
||||
#. muon implantation energy as specified in the :ref:`XML startup <BMWlibs-XML>` file (keV)
|
||||
#. applied field (G)
|
||||
#. thickness of the dead layer (nm)
|
||||
#. thickness of the actually superconducting layer (nm)
|
||||
#. magnetic field penetration depth (nm)
|
||||
|
||||
The optional parameters are:
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a. fraction f\ :sub:`1` of muons in the thin film contributing to the signal (0 ≤ f\ :sub:`1` ≤ 1)
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b. fraction f\ :sub:`s` of muons in the substrate contributing to the signal (0 ≤ f\ :sub:`s` ≤ 1)
|
||||
|
||||
.. index:: TLondon1D2L
|
||||
|
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**Superconducting thin-film bilayer heterostructure**
|
||||
|
||||
::
|
||||
|
||||
userFcn libFitPofB TLondon1D2L 1 2 3 4 5 6 7 8 [a b c]
|
||||
|
||||
The mandatory parameters are:
|
||||
|
||||
#. phase (deg)
|
||||
#. muon implantation energy as specified in the :ref:`XML startup <BMWlibs-XML>` file (keV)
|
||||
#. applied field (G)
|
||||
#. thickness of the dead layer (nm)
|
||||
#. thickness of the actually superconducting first layer (nm)
|
||||
#. thickness of the actually superconducting second layer (nm)
|
||||
#. magnetic field penetration depth of the first layer (nm)
|
||||
#. magnetic field penetration depth of the second layer (nm)
|
||||
|
||||
The optional parameters are:
|
||||
|
||||
a. fraction f\ :sub:`1` of muons in the dead and first layer contributing to the signal (0 ≤ f\ :sub:`1` ≤ 1)
|
||||
b. fraction f\ :sub:`2` of muons in the second layer contributing to the signal (0 ≤ f\ :sub:`2` ≤ 1)
|
||||
c. fraction f\ :sub:`s` of muons in the substrate contributing to the signal (0 ≤ f\ :sub:`s` ≤ 1)
|
||||
|
||||
.. index:: TLondon1D3L
|
||||
|
||||
**Superconducting thin-film trilayer heterostructure**
|
||||
|
||||
::
|
||||
|
||||
userFcn libFitPofB TLondon1D3L 1 2 3 4 5 6 7 8 9 10 [a b c d]
|
||||
|
||||
The mandatory parameters are:
|
||||
|
||||
#. phase (deg)
|
||||
#. muon implantation energy as specified in the :ref:`XML startup <BMWlibs-XML>` file (keV)
|
||||
#. applied field (G)
|
||||
#. thickness of the dead layer (nm)
|
||||
#. thickness of the actually superconducting first layer (nm)
|
||||
#. thickness of the actually superconducting second layer (nm)
|
||||
#. thickness of the actually superconducting third layer (nm)
|
||||
#. magnetic field penetration depth of the first layer (nm)
|
||||
#. magnetic field penetration depth of the second layer (nm)
|
||||
#. magnetic field penetration depth of the third layer (nm)
|
||||
|
||||
The optional parameters are:
|
||||
|
||||
a. fraction f\ :sub:`1` of muons in the dead and first layer contributing to the signal (0 ≤ f\ :sub:`1` ≤ 1)
|
||||
b. fraction f\ :sub:`2` of muons in the second layer contributing to the signal (0 ≤ f\ :sub:`2` ≤ 1)
|
||||
c. fraction f\ :sub:`3` of muons in the third layer contributing to the signal (0 ≤ f\ :sub:`3` ≤ 1)
|
||||
d. fraction f\ :sub:`s` of muons in the substrate contributing to the signal (0 ≤ f\ :sub:`s` ≤ 1)
|
||||
|
||||
Bulk |mgr|\SR
|
||||
^^^^^^^^^^^^^
|
||||
|
||||
.. index:: Vortex-State-Isotropic
|
||||
|
||||
Field distributions in the mixed state of isotropic superconductors
|
||||
"""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""""
|
||||
|
||||
When investigating superconductors in the mixed state by means of conventional |mgr|\SR a
|
||||
two-dimensional flux-line lattice is probed randomly by the muons. The spatial field
|
||||
distributions within such an ordered lattice are modeled using the Fourier series
|
||||
|
||||
.. math::
|
||||
|
||||
B(\mathbf{r}) = \langle B \rangle \sum\limits_{\mathbf{K}}B_{\mathbf{K}}\exp(-\imath\mathbf{K}\mathbf{r}),
|
||||
|
||||
where :math:`\mathbf{r}=(x,y)`, **K** are the reciprocal lattice vectors of a two-dimensional
|
||||
vortex lattice and the :math:`B_{\mathbf{K}}` are the Fourier coefficients depending on the
|
||||
magnetic penetration depth :math:`\lambda` and the superconducting coherence length :math:`\xi`.
|
||||
The :math:`B_{\mathbf{K}}` for some specific models are as follows:
|
||||
|
||||
**London model with Gaussian cutoff** (E.H. Brandt, `J. Low Temp. Phys. 73, 355 (1988) <http://dx.doi.org/10.1007/BF00683568>`_.)
|
||||
|
||||
.. math::
|
||||
|
||||
B_{\mathbf{K}} = \frac{\exp\left({-K^2\xi^2/2}\right)}{1 + K^2\lambda^2}
|
||||
|
||||
**Modified London model** (T.M. Riseman *et al.*, `Phys. Rev. B 52, 10569 (1995) <http://dx.doi.org/10.1103/PhysRevB.52.10569>`_.)
|
||||
|
||||
.. math::
|
||||
|
||||
B_{\mathbf{K}} = \frac{\exp\left({-K^2\xi^2/2(1-b)}\right)}{1 + K^2\lambda^2/(1-b)},
|
||||
|
||||
where :math:`b = \langle B \rangle / (\mu_0 H_{\rm c2})`.
|
||||
|
||||
**Analytical Ginzburg-Landau model** ( A. Yaouanc, P. Dalmas de Réotier and E.H. Brandt, `Phys. Rev. B 55, 11107 (1997) <http://dx.doi.org/10.1103/PhysRevB.55.11107>`_)
|
||||
|
||||
.. math::
|
||||
|
||||
B_{\mathbf{K}} = \frac{f_{\infty}K_1\left(\frac{\xi_v}{\lambda}\sqrt{f_{\infty}^2+\lambda^2K^2}\right)}{K_1\left(\frac{\xi_v}{\lambda}f_{\infty}\right)\sqrt{f_{\infty}^2+\lambda^2K^2}},
|
||||
|
||||
where :math:`f_{\infty} = 1 - b^4,~\xi_v = \xi\left(\sqrt{2}-{3\xi}/\left({4\lambda}\right)\right)\sqrt{(1+b^4)(1-2b(1-b)^2)}` and
|
||||
:math:`K_1` is a modified Bessel function.
|
||||
|
||||
Apart from the mentioned analytic models the **numerical Ginzburg-Landau model** (`E.H. Brandt, Phys. Rev. B 68, 054506 (2003). <http://dx.doi.org/10.1103/PhysRevB.68.054506>`_) is available. In this case :math:`B(\mathbf{r})` is obtained by an iterative minimization of the free energy of the vortex lattice.
|
||||
|
||||
**Concerning the applicability (e.g. field regions) of each of the mentioned models please refer to the original publications!**
|
||||
|
||||
At the moment, the calculation of the field distribution has been implemented for *triangular* flux-line lattices.
|
||||
The number of grid lines in which the inter-vortex distance is divided for the calculations to be specified through
|
||||
the :ref:`XML startup <BMWlibs-XML>`.
|
||||
The muon-spin depolarization functions finally are calculated using the following lines in the THEORY block of a ``musrfit`` msr file:
|
||||
|
||||
.. index:: Vortex-Gaussian-CutOff
|
||||
|
||||
**2D triangular vortex lattice, London model with Gaussian cutoff**
|
||||
|
||||
::
|
||||
|
||||
userFcn libFitPofB TBulkTriVortexLondon 1 2 3 4
|
||||
|
||||
The parameters are:
|
||||
|
||||
#. phase (deg)
|
||||
#. mean magnetic induction (G)
|
||||
#. magnetic penetration depth (nm)
|
||||
#. Ginzburg-Landau coherence length (nm)
|
||||
|
||||
.. index:: Vortex-London-modified
|
||||
|
||||
**2D triangular vortex lattice, modified London model**
|
||||
|
||||
::
|
||||
|
||||
userFcn libFitPofB TBulkTriVortexML 1 2 3 4
|
||||
|
||||
The parameters are:
|
||||
|
||||
#. phase (deg)
|
||||
#. mean magnetic induction (G)
|
||||
#. magnetic penetration depth (nm)
|
||||
#. Ginzburg-Landau coherence length (nm)
|
||||
|
||||
.. index:: Vortex-Analytic-GL
|
||||
|
||||
**2D triangular vortex lattice, analytic Ginzburg-Landau model**
|
||||
|
||||
::
|
||||
|
||||
userFcn libFitPofB TBulkTriVortexAGL 1 2 3 4
|
||||
|
||||
The parameters are:
|
||||
|
||||
#. phase (deg)
|
||||
#. mean magnetic induction (G)
|
||||
#. magnetic penetration depth (nm)
|
||||
#. Ginzburg-Landau coherence length (nm)
|
||||
|
||||
.. index:: Vortex-Numeric-GL
|
||||
|
||||
**2D triangular vortex lattice, numerical Ginzburg-Landau model**
|
||||
|
||||
::
|
||||
|
||||
userFcn libFitPofB TBulkTriVortexNGL 1 2 3 4
|
||||
|
||||
The parameters are:
|
||||
|
||||
#. phase (deg)
|
||||
#. mean magnetic induction (G)
|
||||
#. magnetic penetration depth (nm)
|
||||
#. Ginzburg-Landau coherence length (nm)
|
||||
|
||||
.. note::
|
||||
|
||||
In order to improve the convergence of ``MIGRAD`` it has proven useful to use the log-likelihood
|
||||
maximization instead of the :math:`\chi^2` minimization routines and to choose sufficiently large
|
||||
initial steps for the parameters. Calling ``MINOS`` in conjunction with these functions is futile.
|
||||
|
||||
Therefore, the :ref:`COMMANDS block <msr-commands-block>` of the msr file could look like:
|
||||
|
||||
::
|
||||
|
||||
COMMANDS
|
||||
STRATEGY 2
|
||||
MAX_LIKELIHOOD
|
||||
MIGRAD
|
||||
HESSE
|
||||
SAVE
|
||||
|
||||
.. index:: BMWlibs-XML
|
||||
.. _BMWlibs-XML:
|
||||
|
||||
The XML startup file
|
||||
^^^^^^^^^^^^^^^^^^^^
|
||||
|
||||
``BMW_startup.xml`` is a configuration file located in the working directory. In this file some settings
|
||||
like the time and field resolution of the calculations as well as the present muon implantation profiles
|
||||
for a LE-|mgr|\SR analysis have to be defined. The following XML tags are allowed to define settings:
|
||||
|
||||
**<debug>ONE_OR_ZERO</debug>**
|
||||
activate the debugging output of the settings read from the XML file by setting 1, deactivate it with 0.
|
||||
**<wisdom>PATH_TO_FILE</wisdom>**
|
||||
specify the ``PATH_TO_FILE`` to an `FFTW3 wisdom file <http://fftw.org/fftw3_doc/Wisdom.html#Wisdom>`_
|
||||
that should be used; if the ``PATH_TO_FILE`` is invalid, no ``FFTW3`` wisdom will be used.
|
||||
**<delta_t>ResT</delta_t>**
|
||||
set the time resolution ``ResT`` for the calculated depolarization function in microseconds.
|
||||
**<delta_B>ResB</delta_B>**
|
||||
set the field resolution ``ResB`` for the calculated field distribution in Gauss.
|
||||
**<VortexLattice></VortexLattice>**
|
||||
set the parameters used for the calculation of the spatial field distribution of a vortex lattice.
|
||||
|
||||
**<N_VortexGrid>N</N_VortexGrid>**
|
||||
specify the number of points **N** (in each of the two dimensions) for which the fields within the
|
||||
vortex lattice are calculated (inside a **<VortexLattice>** environment)
|
||||
|
||||
**<LEM></LEM>**
|
||||
set the parameters used for the calculation of LE-|mgr|\SR field distributions
|
||||
|
||||
**<data_path>DATA_PATH_PREFIX</data_path>**
|
||||
specify the ``DATA_PATH_PREFIX`` to the ``TRIM.SP`` implantation profiles (inside a **<LEM>** environment)
|
||||
**<N_theory>N_THEORY</N_theory>**
|
||||
specify the number of points **N_THEORY** for which *B(z)* is calculated (inside a **<LEM>** environment)
|
||||
The specification of this number is not needed if the calculation of the inverse of *B(z)* is implemented!
|
||||
**<energy_list></energy_list>**
|
||||
set the energies for which ``TRIM.SP`` implantation profiles are available (inside a **<LEM>** environment)
|
||||
|
||||
**<energy_label>LABEL</energy_label>**
|
||||
specify the **LABEL** within the file name of a available ``TRIM.SP`` ``RGE`` file (inside a **<energy_list>** environment)
|
||||
The expected name of the ``RGE`` file will be: ``DATA_PATH_PREFIX + LABEL + .rge``
|
||||
**<energy>E</energy>**
|
||||
specify the muon energy *E* (in keV) belonging to the ``TRIM.SP`` ``RGE`` file given above (inside a **<energy_list>** environment)
|
||||
|
||||
An example XML file looks as follows:
|
||||
|
||||
.. code-block:: xml
|
||||
|
||||
<?xml version="1.0" encoding="UTF-8"?>
|
||||
<BMW>
|
||||
<debug>0</debug>
|
||||
<wisdom>/home/user/WordsOfWisdom.dat</wisdom>
|
||||
<delta_t>0.01</delta_t>
|
||||
<delta_B>0.5</delta_B>
|
||||
<VortexLattice>
|
||||
<N_VortexGrid>1024</N_VortexGrid>
|
||||
</VortexLattice>
|
||||
<LEM>
|
||||
<data_path>/home/user/TrimSP/some-sample-</data_path>
|
||||
<N_theory>5000</N_theory>
|
||||
<energy_list>
|
||||
<energy_label>02_0</energy_label>
|
||||
<energy>2.0</energy>
|
||||
<energy_label>03_0</energy_label>
|
||||
<energy>3.0</energy>
|
||||
<energy_label>03_6</energy_label>
|
||||
<energy>3.6</energy>
|
||||
<energy_label>05_0</energy_label>
|
||||
<energy>5.0</energy>
|
||||
<energy_label>05_3</energy_label>
|
||||
<energy>5.3</energy>
|
||||
</energy_list>
|
||||
</LEM>
|
||||
</BMW>
|
||||
|
||||
Nonlocal superconductivity related Meissner screening functions (AS libs)
|
||||
-------------------------------------------------------------------------
|
||||
|
||||
To be written yet ...
|
||||
|
||||
.. index:: BNMR-libs
|
||||
.. _BNMR-libs:
|
||||
|
||||
Functions to analyze |bgr|-NMR data (BNMR libs)
|
||||
-------------------------------------------------------------------------
|
||||
|
||||
This is a collection of ``C++`` classes using the ``musrfit`` :ref:`user-functions <user-functions>`
|
||||
interface in order to facilitate the usage in conjunction with ``musrfit``. It consists of two libraries:
|
||||
|
||||
* ``libBNMR`` contains functions to fit spin lattice relaxation (SLR) data.
|
||||
* ``libLineProfile`` contains functions to fit resonance lineshapes.
|
||||
|
||||
|
||||
.. note::
|
||||
|
||||
Currently it is recommended to read in the data in ASCII format as a non-|mgr|\SR fit :ref:`(fit type 8) <non-musr-fit>`.
|
||||
|
||||
.. index:: libBNMR
|
||||
|
||||
libBNMR
|
||||
++++++++++
|
||||
|
||||
In |bgr|-NMR the SLR is usually measured by implanting a pulse of :math:`^8`\ Li with a length :math:`t_0` into the sample.
|
||||
The asymmetry is measured both during the pulse and afterwards. For a a general spin relaxation function :math:`f(t)` the time evolution of the asymmetry is then given by [`Z. Salman, et al., PRL 96, 147601 (2006) <http://dx.doi.org/10.1103/PhysRevLett.96.147601>`_]:
|
||||
|
||||
|
||||
|
||||
.. index:: SLR
|
||||
.. _SLR:
|
||||
|
||||
.. math::
|
||||
P(t) = \left\{\begin{matrix}
|
||||
\frac{\int_0^t e^{-(t-t')/\tau_{\mathrm{Li}}}f(t-t')dt'}{\int_0^t e^{-t'/\tau_{\mathrm{Li}}}dt' } & t\leq t_0\\[6pt]
|
||||
\frac{\int_0^{t_0}e^{-(t_0-t')/\tau_{\mathrm{Li}}}f(t-t')dt'}{\int_0^{t_0}e^{-t'/\tau_{\mathrm{Li}}}dt'} & t> t_0,
|
||||
\end{matrix}\right.
|
||||
|
||||
where :math:`\tau_{\mathrm{Li}}=1.21`\ s is the :math:`^8`\ Li lifetime.
|
||||
|
||||
|
||||
Functions
|
||||
^^^^^^^^^^^^
|
||||
The ``libBNMR`` library currently contains the following functions:
|
||||
|
||||
|
||||
|
||||
|
||||
.. index:: ExpRlx
|
||||
|
||||
**Exponential relaxation**
|
||||
|
||||
::
|
||||
|
||||
userFcn libBNMR ExpRlx 1 2
|
||||
|
||||
The parameters are:
|
||||
|
||||
#. pulse length :math:`t_0` (s)
|
||||
#. relaxation rate :math:`\lambda` (s\ :math:`^{-1}`\ )
|
||||
|
||||
This function implements :math:`f(t)=e^{-\lambda t}`.
|
||||
|
||||
.. index:: SExpRlx
|
||||
|
||||
**Stretched exponential relaxation**
|
||||
|
||||
::
|
||||
|
||||
userFcn libBNMR SExpRlx 1 2 3
|
||||
|
||||
The parameters are:
|
||||
|
||||
#. pulse length :math:`t_0` (s)
|
||||
#. relaxation rate :math:`\lambda` (s\ :math:`^{-1}`\ )
|
||||
#. stretching exponent :math:`\beta`
|
||||
|
||||
This function implements :math:`f(t)=e^{-(\lambda t)^{\beta}}`.
|
||||
|
||||
|
||||
|
||||
.. index:: libLineProfile
|
||||
|
||||
libLineProfile
|
||||
+++++++++++++++++
|
||||
In addition to some simple line shapes ``libLineProfile`` contains functions to fit chemical shift anisotropies in the powder average.
|
||||
Their functional form can be found in `M. Mehring, Principles of High Resolution NMR in Solids (Springer 1983) <http://dx.doi.org/10.1007/978-3-642-68756-3_2>`_.
|
||||
|
||||
For an axially symmetric interaction it is given by:
|
||||
|
||||
.. index:: Iax
|
||||
.. _Iax:
|
||||
|
||||
.. math::
|
||||
|
||||
I_{\mathrm ax}(f)=\left\{\begin{matrix} \frac{1}{2\sqrt{(f_\parallel-f_\perp)(f-f_\perp)}}& f\in(f_\perp,f_\parallel)\cup(f_\parallel,f_\perp)\\[6pt] 0 & \text{otherwise}\end{matrix} \right.
|
||||
|
||||
where :math:`f_\parallel` and :math:`f_\perp` are the frequencies that would be observed if the field is oriented paralell or perpendicular to the symmetry axis, respectively.
|
||||
|
||||
|
||||
| In case of a completely anisotropic interaction, the powder average can be described by the frequencies along the three principle axis :math:`f_1,f_2,f_3`.
|
||||
| Assume without loss of generality that :math:`f_1<f_2<f_3`, then
|
||||
|
||||
.. index:: Ianiso
|
||||
.. _Ianiso:
|
||||
|
||||
.. math::
|
||||
I(f)&=\left\{\begin{matrix}
|
||||
\frac{K(m)}{\pi\sqrt{(f-f_1)(f_3-f_2)}},& f_3\geq f>f_2 \\[9pt]
|
||||
\frac{K(m)}{\pi\sqrt{(f_3-f)(f_2-f_1)}},& f_2>f\geq f_1\\[9pt]
|
||||
0 & \text{otherwise}
|
||||
\end{matrix} \right. \\
|
||||
\\
|
||||
m&=\left\{\begin{matrix}
|
||||
\frac{(f_2-f_1)(f_3-f)}{(f_3-f_2)(f-f_1)},& f_3\geq f>f_2 \\[6pt]
|
||||
\frac{(f-f_1)(f_3-f_2)}{(f_3-f)(f_2-f_1)},& f_2>f\geq f_1\\[6pt]
|
||||
\end{matrix} \right. \\
|
||||
\\
|
||||
K(m)&=\int_0^{\pi/2}\frac{\mathrm d\varphi}{\sqrt{1-m^2\sin^2{\varphi}}},
|
||||
|
||||
|
||||
:math:`K(m)` is the complete elliptic integral of the first kind.
|
||||
|
||||
|
||||
|
||||
Functions
|
||||
^^^^^^^^^^^^
|
||||
The ``libLineProfile`` library currently contains the following functions:
|
||||
|
||||
|
||||
|
||||
|
||||
.. index:: LineGauss
|
||||
|
||||
**Gaussian**
|
||||
|
||||
::
|
||||
|
||||
userFcn libLineProfile LineGauss 1 2
|
||||
|
||||
The parameters are:
|
||||
|
||||
#. center of the line :math:`f_0`
|
||||
#. FWHM of the line :math:`\sigma`
|
||||
|
||||
| The height of the peak is 1.
|
||||
| The functional form is given by
|
||||
|
||||
.. math::
|
||||
A(f)=e^{-\frac{4\ln 2 (f-f_0)^2}{ \sigma^2}}
|
||||
|
||||
|
||||
.. index:: LineLorentzian
|
||||
|
||||
**Lorentzian**
|
||||
|
||||
::
|
||||
|
||||
userFcn libLineProfile LineLorentzian 1 2
|
||||
|
||||
The parameters are:
|
||||
|
||||
#. center of the line :math:`f_0`
|
||||
#. FWHM of the line :math:`w`
|
||||
|
||||
| The height of the peak is 1.
|
||||
| The functional form is given by
|
||||
|
||||
.. math::
|
||||
A(f)= \frac{w^2}{4(f-f_0)^2+w^2}
|
||||
|
||||
|
||||
.. index:: LineLaplace
|
||||
|
||||
**Laplacian**
|
||||
|
||||
::
|
||||
|
||||
userFcn libLineProfile LineLaplace 1 2
|
||||
|
||||
The parameters are:
|
||||
|
||||
#. center of the line :math:`f_0`
|
||||
#. FWHM of the line :math:`w`
|
||||
|
||||
| The height of the peak is 1.
|
||||
| The functional form is given by
|
||||
|
||||
.. math::
|
||||
A(f)=e^{-2\ln 2 \left|\frac{f-f_0}{w}\right|}
|
||||
|
||||
|
||||
|
||||
.. index:: LineSkewLorentzian
|
||||
|
||||
**Skewed Lorentzian**
|
||||
|
||||
::
|
||||
|
||||
userFcn libLineProfile LineSkewLorentzian 1 2 3
|
||||
|
||||
The parameters are:
|
||||
|
||||
#. center of the line :math:`f_0`
|
||||
#. width of the line :math:`w`
|
||||
#. skewness parameter :math:`a`
|
||||
|
||||
| The height of the peak is 1.
|
||||
| The functional form is given by
|
||||
|
||||
.. math::
|
||||
A(f)= \frac{w w_a}{4(f-f_0)^2+w_a^2}, \quad w_a=\frac{2w}{1+e^{a(f-f_0)}}
|
||||
|
||||
|
||||
|
||||
.. index:: LineSkewLorentzian2
|
||||
|
||||
**Skewed Lorentzian 2**
|
||||
|
||||
::
|
||||
|
||||
userFcn libLineProfile LineSkewLorentzian2 1 2 3
|
||||
|
||||
The parameters are:
|
||||
|
||||
#. center of the line :math:`f_0`
|
||||
#. width left of the center :math:`w_1`
|
||||
#. width right of the center :math:`w_2`
|
||||
|
||||
| The height of the peak is 1.
|
||||
| The functional form is given by
|
||||
|
||||
.. math::
|
||||
A(f)= \left\{\begin{matrix}\frac{{w_1}^2}{4{(f-f_0)}^2+{w_1}^2},&f\leq f_0\\[9pt] \frac{{w_2}^2}{4{(f-f_0)}^2+{w_2}^2},&f>f_0\end{matrix}\right.
|
||||
|
||||
|
||||
|
||||
.. index:: PowderLineAxialLor
|
||||
|
||||
|
||||
**Powder average of an axially symmetric interaction convoluted with a Lorentzian**
|
||||
|
||||
::
|
||||
|
||||
userFcn libLineProfile PowderLineAxialLor 1 2 3
|
||||
|
||||
The parameters are:
|
||||
|
||||
#. frequency for the field oriented paralell to the symmetry axis :math:`f_\parallel`
|
||||
#. frequency for the field oriented perpendicular to the symmetry axis :math:`f_\parallel`
|
||||
#. FWHM of the Lorentzian :math:`w`
|
||||
|
||||
| The height of the peak is :math:`\sim`\ 1.
|
||||
| The functional form is given by
|
||||
|
||||
.. math::
|
||||
A(f)= I_{\mathrm ax}(f)\circledast\left( \frac{w^2}{4f^2+w^2} \right)
|
||||
|
||||
with :math:`I_{\mathrm ax}(f)` defined :ref:`above <Iax>`.
|
||||
|
||||
|
||||
|
||||
.. index:: PowderLineAxialGss
|
||||
|
||||
|
||||
**Powder average of an axially symmetric interaction convoluted with a Gaussian**
|
||||
|
||||
::
|
||||
|
||||
userFcn libLineProfile PowderLineAxialGss 1 2 3
|
||||
|
||||
The parameters are:
|
||||
|
||||
#. frequency for the field oriented paralell to the symmetry axis :math:`f_\parallel`
|
||||
#. frequency for the field oriented perpendicular to the symmetry axis :math:`f_\parallel`
|
||||
#. FWHM of the Gaussian :math:`\sigma`
|
||||
|
||||
| The height of the peak is :math:`\sim`\ 1.
|
||||
| The functional form is given by
|
||||
|
||||
.. math::
|
||||
A(f)= I_{\mathrm ax}(f)\circledast\left( e^{-\frac{4\ln 2 (f-f_0)^2}{ \sigma^2}} \right)
|
||||
|
||||
with :math:`I_{\mathrm ax}(f)` defined :ref:`above <Iax>`.
|
||||
|
||||
|
||||
|
||||
.. index:: PowderLineAsymLor
|
||||
|
||||
|
||||
**Powder average of an anisotropic interaction convoluted with a Lorentzian**
|
||||
|
||||
::
|
||||
|
||||
userFcn libLineProfile PowderLineAsymLor 1 2 3 4
|
||||
|
||||
The parameters are:
|
||||
|
||||
#. :math:`f_1`
|
||||
#. :math:`f_1`
|
||||
#. :math:`f_3` frequencies along the principal axes
|
||||
#. FWHM of the Lorentzian :math:`w`
|
||||
|
||||
| The height of the peak is :math:`\sim`\ 1.
|
||||
| The functional form is given by
|
||||
|
||||
.. math::
|
||||
A(f)= I(f)\circledast\left( \frac{w^2}{4f^2+w^2} \right)
|
||||
|
||||
with :math:`I(f)` defined :ref:`above <Ianiso>`. Note that :math:`f_1<f_2<f_3` is not required by the code.
|
||||
|
||||
|
||||
|
||||
.. index:: PowderLineAsymGss
|
||||
|
||||
|
||||
**Powder average of an anisotropic interaction convoluted with a Gaussian**
|
||||
|
||||
::
|
||||
|
||||
userFcn libLineProfile PowderLineAsymGss 1 2 3 4
|
||||
|
||||
The parameters are:
|
||||
|
||||
#. :math:`f_1`
|
||||
#. :math:`f_1`
|
||||
#. :math:`f_3` frequencies along the principal axes
|
||||
#. FWHM of the Gaussian :math:`\sigma`
|
||||
|
||||
| The height of the peak is :math:`\sim`\ 1.
|
||||
| The functional form is given by
|
||||
|
||||
.. math::
|
||||
A(f)= I(f)\circledast\left( e^{-\frac{4\ln 2 (f-f_0)^2}{ \sigma^2}} \right)
|
||||
|
||||
with :math:`I(f)` defined :ref:`above <Ianiso>`. Note that :math:`f_1<f_2<f_3` is not required by the code.
|
||||
|
||||
|
||||
|
Reference in New Issue
Block a user