[med-svn] [python-mne] 157/376: fixing manual
Yaroslav Halchenko
debian at onerussian.com
Fri Nov 27 17:22:25 UTC 2015
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yoh pushed a commit to annotated tag v0.1
in repository python-mne.
commit 0c1a3da719f060bbceddfa29c03e7c989216c71a
Author: Emily Ruzich <emilyr at nmr.mgh.harvard.edu>
Date: Wed Mar 23 16:11:24 2011 -0400
fixing manual
---
doc/source/manual/forward.rst | 4 ++--
doc/source/manual/list.rst | 20 ++++++++++----------
doc/source/manual/matlab.rst | 4 ++--
doc/source/manual/utilities.rst | 2 +-
4 files changed, 15 insertions(+), 15 deletions(-)
diff --git a/doc/source/manual/forward.rst b/doc/source/manual/forward.rst
index 08803fb..fcb6640 100644
--- a/doc/source/manual/forward.rst
+++ b/doc/source/manual/forward.rst
@@ -338,7 +338,7 @@ The command-line options are:
Specifies a MRI volume (in mgz or mgh format).
If this argument is present the output source space file will contain
a (sparse) interpolation matrix which allows mne_volume_data2mri to
- create an MRI overlay file, see Section 9.4.
+ create an MRI overlay file, see :ref:`BEHDEJEC`.
**\---pos <name>**
@@ -1098,7 +1098,7 @@ the following command-line options:
Implementation of software gradient compensation
================================================
-As described in :ref:`BEHDDFBI` the CTF and 4D Neuroimaging
+As described in :ref:`BEHDDFBI`BEHDEJEC the CTF and 4D Neuroimaging
data may have been subjected to noise cancellation employing the
data from the reference sensor array. Even though these sensor are
rather far away from the brain sources, mne_forward_solution takes
diff --git a/doc/source/manual/list.rst b/doc/source/manual/list.rst
index 88f5a98..c2a040c 100644
--- a/doc/source/manual/list.rst
+++ b/doc/source/manual/list.rst
@@ -42,7 +42,7 @@ in italics. :ref:`BABDJHGH` lists various supplementary utilities.
| | see :ref:`CBBCGHAH`. |
+----------------------------+--------------------------------------------+
| *mne_convert_mne_data* | Convert MNE data files to other file |
- | | formats, see Section 9.12. |
+ | | formats, see :ref:`BEHCCEBJ`. |
+----------------------------+--------------------------------------------+
| *mne_do_forward_solution* | Convenience script to calculate the forward|
| | solution matrix, see :ref:`BABCHEJD`. |
@@ -123,7 +123,7 @@ in italics. :ref:`BABDJHGH` lists various supplementary utilities.
| | see :ref:`CHDBBFCA`. |
+---------------------------------+--------------------------------------------+
| *mne_brain_vision2fiff* | Convert EEG data from BrainVision format |
- | | to fif format, see Section 9.2.10. |
+ | | to fif format, see :ref:`BEHCCCDC`. |
+---------------------------------+--------------------------------------------+
| *mne_change_baselines* | Change the dc offsets according to |
| | specifications given in a text file, |
@@ -146,7 +146,7 @@ in italics. :ref:`BABDJHGH` lists various supplementary utilities.
+---------------------------------+--------------------------------------------+
| *mne_collect_transforms* | Collect coordinate transformations from |
| | several sources into a single fif file, |
- | | see Section 9.9. |
+ | | see :ref:`BABBIFIJ`. |
+---------------------------------+--------------------------------------------+
| *mne_compensate_data* | Change the applied software gradient |
| | compensation in an evoked-response data |
@@ -154,10 +154,10 @@ in italics. :ref:`BABDJHGH` lists various supplementary utilities.
+---------------------------------+--------------------------------------------+
| *mne_convert_lspcov* | Convert the LISP format noise covariance |
| | matrix output by graph into fif, |
- | | see Section 9.11. |
+ | | see :ref:`BEHCDBHG`. |
+---------------------------------+--------------------------------------------+
| *mne_convert_ncov* | Convert the ncov format noise covariance |
- | | file to fif, see Section 9.10. |
+ | | file to fif, see :ref:`BEHCHGHD`. |
+---------------------------------+--------------------------------------------+
| *mne_convert_surface* | Convert FreeSurfer and text format surface |
| | files into Matlab mat files, |
@@ -188,7 +188,7 @@ in italics. :ref:`BABDJHGH` lists various supplementary utilities.
+---------------------------------+--------------------------------------------+
| *mne_epochs2mat* | Apply bandpass filter to raw data and |
| | extract epochs for subsequent processing |
- | | in Matlab, see Section 9.14. |
+ | | in Matlab, see :ref:`BEHFIDCB`. |
+---------------------------------+--------------------------------------------+
| *mne_evoked_data_summary* | List summary of averaged data from a fif |
| | file to the standard output. |
@@ -214,7 +214,7 @@ in italics. :ref:`BABDJHGH` lists various supplementary utilities.
| | :ref:`BEHGDDBH`. |
+---------------------------------+--------------------------------------------+
| *mne_list_bem* | List BEM information in text format, |
- | | see Section 9.6. |
+ | | see :ref:`BEHBBEHJ`. |
+---------------------------------+--------------------------------------------+
| *mne_list_coil_def* | Create the coil description file. This |
| | is run automatically at when the software |
@@ -225,7 +225,7 @@ in italics. :ref:`BABDJHGH` lists various supplementary utilities.
+---------------------------------+--------------------------------------------+
| *mne_list_source_space* | List source space information in text |
| | format suitable for importing into |
- | | Neuromag MRIlab software, see Section 9.5. |
+ | | Neuromag MRIlab, see :ref:`BEHBHIDH`. |
+---------------------------------+--------------------------------------------+
| *mne_list_versions* | List versions and compilation dates of MNE |
| | software modules, see :ref:`CHDFIGBG`. |
@@ -265,7 +265,7 @@ in italics. :ref:`BABDJHGH` lists various supplementary utilities.
| mne_process_stc | Manipulate stc files. |
+---------------------------------+--------------------------------------------+
| *mne_raw2mat* | Convert raw data into a Matlab file, |
- | | see Section 9.13. |
+ | | see :ref:`BEHCBCGG`. |
+---------------------------------+--------------------------------------------+
| *mne_rename_channels* | Change the names and types of channels |
| | in a fif file, see :ref:`CHDCFEAJ`. |
@@ -306,7 +306,7 @@ in italics. :ref:`BABDJHGH` lists various supplementary utilities.
| *mne_volume_data2mri* | Convert volumetric data defined in a |
| | source space created with |
| | mne_volume_source_space into an MRI |
- | | overlay, see Section 9.4. |
+ | | overlay, see :ref:`BEHDEJEC`. |
+---------------------------------+--------------------------------------------+
| *mne_volume_source_space* | Make a volumetric source space, |
| | see :ref:`BJEFEHJI`. |
diff --git a/doc/source/manual/matlab.rst b/doc/source/manual/matlab.rst
index 1ce91e6..822f6f9 100644
--- a/doc/source/manual/matlab.rst
+++ b/doc/source/manual/matlab.rst
@@ -241,7 +241,7 @@ they are listed in :ref:`BGBEFADJ`.
mne_omit_first_line Omit first line from a multi-line message. This routine is useful for formatting error messages.
mne_prepare_inverse_operator Prepare inverse operator data for calculating L2 minimum-norm solutions and dSPM.
mne_setup_toolbox Set up the MNE Matlab toolbox.
- mne_transform_coordinates Transform locations between different coordinate systems. This function uses the output file from mne_collect_transforms described in Section 9.9 as input.
+ mne_transform_coordinates Transform locations between different coordinate systems. This function uses the output file from mne_collect_transforms described in :ref:`BABBIFIJ` as input.
mne_transpose_named_matrix Create a transpose of a named matrix.
mne_transform_source_space_to Transform source space data to another coordinate frame.
================================ ==============================================================================================================================================================
@@ -253,7 +253,7 @@ they are listed in :ref:`BGBEFADJ`.
========================= =================================================================================
Function Purpose
========================= =================================================================================
- mne_ex_average_epochs Example of averaging epoch data produced by mne_epochs2mat , see Section 9.14.
+ mne_ex_average_epochs Example of averaging epoch data produced by mne_epochs2mat , see :ref:`BEHFIDCB`.
mne_ex_cancel_noise Example of noise cancellation procedures.
mne_ex_compute_inverse Example of computing a L2 minimum-norm estimate or a dSPM solution
mne_ex_data_sets Example of listing evoked-response data sets.
diff --git a/doc/source/manual/utilities.rst b/doc/source/manual/utilities.rst
index fc95d9a..b063fff 100644
--- a/doc/source/manual/utilities.rst
+++ b/doc/source/manual/utilities.rst
@@ -1023,7 +1023,7 @@ the following command-line options:
Output the data in the head points (hpts)
format accepted by tkmedit . In
this format, the coordinates are preceded by a point category (hpi,
- cardinal or fiducial, eeg, extra) and a sequence number, see Section 9.3.1.
+ cardinal or fiducial, eeg, extra) and a sequence number, see :ref:`CJADJEBH`.
**\---meters**
--
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