3949917403
git-svn-id: https://subversion.xor.aps.anl.gov/synApps/areaDetector/trunk@8464 dc6c5ff5-0b8b-c028-a01f-ffb33f00fc8b
231 lines
9.0 KiB
HTML
Executable File
231 lines
9.0 KiB
HTML
Executable File
<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Strict//EN"
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"http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd">
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<html xml:lang="en" xmlns="http://www.w3.org/1999/xhtml">
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<head>
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<title>areaDetector Plugin NDPluginFile</title>
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<meta content="text/html; charset=ISO-8859-1" http-equiv="Content-Type" />
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</head>
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<body>
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<div style="text-align: center">
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<h1>
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areaDetector Plugin NDPluginFile</h1>
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<h2>
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January 30, 2009</h2>
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<h2>
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Mark Rivers</h2>
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<h2>
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University of Chicago</h2>
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</div>
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<h2>
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Contents</h2>
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<ul>
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<li><a href="#Overview">Overview</a></li>
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<li><a href="#Configuration">Configuration</a></li>
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<li><a href="#Screens">Screen shots</a></li>
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<li><a href="#netCDF">netCDF file contents</a></li>
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<li><a href="#IDL">IDL file reading function</a></li>
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<li><a href="#Future">Future plans</a></li>
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</ul>
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<h2 id="Overview">
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Overview
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</h2>
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<p>
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NDPluginFile saves the NDArray data from a callback to a disk file.
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</p>
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<p>
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NDPluginFile inherits from NDPluginDriver. This plugin currently saves data in the
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<a href="http://www.unidata.ucar.edu/software/netcdf">netCDF</a> file format, which
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is a portable self-describing binary file format supported by <a href="http://www.unidata.ucar.edu/">
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UniData</a> at <a href="http://www.ucar.edu/">UCAR (University Corporation for Atmospheric
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Research).</a> There are netCDF libraries for C, C++, Fortran, and Java. Other
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languages, including Matlab and IDL have built-in support for netCDF. There are
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also add-on interfaces available for Python, Ruby and other languages.
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</p>
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<p>
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The NDArray callback data can be written to disk in 1 of 3 modes:
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</p>
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<ol>
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<li>Single mode. In this mode each NDArray callback results in a separate disk file.</li>
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<li>Capture mode. In this mode a memory buffer is allocated before saving begins.
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Callback arrays are placed into this buffer, and when capture stops the file is
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written to disk. This mode limits the number of frames that can be saved, because
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they all must fit in a memory buffer. It is the fastest mode, with the least probability
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of dropping arrays, because no disk I/O is required while capture is in progress.</li>
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<li>Stream mode. In this mode the data are written to a single disk file, with each
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frame being appended to the file without closing it. It is intermediate in speed
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between single mode and capture mode, but unlike capture mode it is not limited
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by available memory in the number of arrays that can be saved.</li>
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</ol>
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<p>
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Note that the colorMode and bayerFormat must not be changed while file capture or
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file streaming are in progress because that would change the structure of the data
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array.</p>
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<p>
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The NDPluginFile public interface is defined in NDPluginFile.h as follows:
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</p>
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<pre>/* Note that the file format enum must agree with the mbbo/mbbi records in the NDFile.template file */
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typedef enum {
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NDFileFormatNetCDF
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} NDPluginFileFormat_t;
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...
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class NDPluginFile : public NDPluginDriver {
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public:
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NDPluginFile(const char *portName, int queueSize, int blockingCallbacks,
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const char *NDArrayPort, int NDArrayAddr);
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/* These methods override those in the base class */
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void processCallbacks(NDArray *pArray);
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asynStatus writeInt32(asynUser *pasynUser, epicsInt32 value);
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asynStatus writeNDArray(asynUser *pasynUser, void *genericPointer);
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asynStatus drvUserCreate(asynUser *pasynUser, const char *drvInfo,
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const char **pptypeName, size_t *psize);
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...
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}
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</pre>
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<p>
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NDPluginFile supports all of the file saving parameters defined in <a href="areaDetectorDoc.html#ADStdDriverParams">
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ADStdDriverParams.h</a>, e.g. ADFilePath, ADFileName, etc. Thus, the same interface
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that is used for saving files directly in a driver is used for this plugin.
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</p>
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<h2 id="Configuration">
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Configuration</h2>
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<p>
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The NDPluginFile plugin is created with the following command, either from C/C++
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or from the EPICS IOC shell.
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</p>
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<pre>drvNDFileConfigure(const char *portName, int queueSize, int blockingCallbacks,
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const char *NDArrayPort, int NDArrayAddr)
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</pre>
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<table border="1" cellpadding="2" cellspacing="2" style="text-align: left">
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<tr>
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<th>
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Argument</th>
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<th>
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Description</th>
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</tr>
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<tr>
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<td>
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<code>portName</code></td>
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<td>
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The name of the asyn port for this plugin.
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</td>
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</tr>
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<tr>
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<td>
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<code>queueSize</code></td>
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<td>
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The maximum number of NDArray objects that can be queued for processing. Passed
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to the NDPluginDriver base class constructor.
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</td>
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</tr>
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<tr>
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<td>
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<code>blockingCallbacks</code></td>
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<td>
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Flag controlling whether callbacks block. Passed to the NDPluginDriver base class
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constructor.
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</td>
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</tr>
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<tr>
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<td>
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<code>NDArrayPort</code></td>
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<td>
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The name of the asyn port of the driver that will provide the NDArray data. Passed
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to the NDPluginDriver base class constructor.
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</td>
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</tr>
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<tr>
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<td>
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<code>NDArrayAddr</code></td>
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<td>
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The asyn addr of the asyn port of the driver that will provide the NDArray data.
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Passed to the NDPluginDriver base class constructor.
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</td>
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</tr>
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</table>
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<h2 id="Screens">
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Screen shots</h2>
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<p>
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The following is the MEDM screen that provides access to the parameters in NDPluginDriver.h
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and NDPluginFile.h through records in NDPluginBase.template and NDFile.template.
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This is the MEDM screen that is used to control the saving of images to disk.
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</p>
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<div style="text-align: center">
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<h3>
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NDPluginFile.adl</h3>
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<p>
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<img alt="NDPluginFile.png" src="NDPluginFile.png" /></p>
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</div>
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<h2 id="netCDF">
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netCDF file contents</h2>
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<p>
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The following is the header contents of a netCDF file produced by this plugin. This
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information was produced with the following command:</p>
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<pre>ncdump -h testB_3.nc
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netcdf testB_3 {
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dimensions:
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numArrays = UNLIMITED ; // (10 currently)
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dim0 = 1024 ;
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dim1 = 1360 ;
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dim2 = 3 ;
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variables:
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int uniqueId(numArrays) ;
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double timeStamp(numArrays) ;
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byte array_data(numArrays, dim0, dim1, dim2) ;
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// global attributes:
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:dataType = 1 ;
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:numArrayDims = 3 ;
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:dimSize = 3, 1360, 1024 ;
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:dimOffset = 0, 0, 0 ;
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:dimBinning = 1, 1, 1 ;
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:dimReverse = 0, 0, 0 ;
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:colorMode = "RGB1" ;
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:bayerPattern = "RGGB" ;
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}
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</pre>
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<p>
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This is an explanation of this output:
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</p>
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<ul>
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<li>dimensions: numArrays is the number of arrays in the file. It will be 1 for files
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collected in Single mode, and is normally >1 for files collected in Capture or
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Stream mode. For each array dim0 is the slowest varying dimension, dim1 the next
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slowest, etc.</li>
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<li>variables: There are 3 variables in the netCDF file. uniqueId is the unique ID
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number of each array. timeStamp is the timestamp in seconds for each array. array_data
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is the array data. Its data type depends on the data type of the NDArray data passed
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in the callbacks. It dimensions are [numArrays, dim0, dim1, ...dimN]. This notation
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is in the Fortran syntax where the slowest varying dimension comes first in the
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list.</li>
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<li>global attributes. dataType is the NDDataType_t enum value for the array data
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type. numArrayDims is the number of dimensions in each array. array_data has 1 more
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dimension than this, numArrays, because it contains all of the array callback data.
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dimSize is an array[numArrayDims] containing the size of each dimension, with the
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fastest varying dimension first. dimOffset, dimBinning, and dimReverse are the values
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of the offset, binning and reverse fields in the NDDimension_t structure for each
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dimension. colorMode is the color mode of the data. It is a string rather than the
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NDColorMode_T value, so that it is easy to understand and independent of changes
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to the enum definition. bayerPattern is the Bayer pattern of the data, also as a
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string rather than an enum. </li>
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</ul>
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<h2 id="IDL">
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IDL file reading function</h2>
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<p>
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There is an IDL function, <a href="http://cars.uchicago.edu/software/idl/detector_routines.html#read_nd_netcdf">
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read_nd_netcdf</a> that can be used to read the netCDF files created by this plugin.
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This routine is contained in the <a href="http://cars.uchicago.edu/software/idl/detectors.html#read_nd_netcdf">
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CARS IDL detector package</a>. This function is also contained in the areaDetector
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distribution in the Viewers/IDL directory.
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</p>
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<h2 id="Future">
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Future plans</h2>
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<p>
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Additional file formats, such as TIFF and HDF may be supported in the future.
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</p>
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</body>
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</html>
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