Syntax highlighting of CRISM

The Compact Reconnaissance Imaging Spectrometer for Mars (CRISM) is a Visible and Near-Infrared (VNIR) imaging spectrometer onboard Mars Reconnaissance Orbiter (MRO), in orbit since 2006. It was built and tested by the Johns Hopkins University Applied Physics  Laboratory  under  the  supervision  of  principal  investigator  Scott  Murchie. The observations enable to have mineralogy information of the martian surface at a spatial resolution of ~20 to ~200 m/px.

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== Data description ==
The CRISM instrument has two acquisition modes:

=== The targeted mode (multiangular pointing) ===
The  instrument  tracks the targets and takes 11 hyperspectral images (544 bands from 362 to 3920 nm)  at  different  emission  angles  due  to  the  rotation  of  the  detector  at ± 70°:  10  hyperspectral  images  taken  at  different  emission  angles  before  and  after  the  central  image  corresponding  to  the  close  nadir  image  (image  #07).  The  10  hyperspectral multi-angular  observations are reduced to a factor 10 compared to  the  spatial  resolution of  the  central  image. According  to  the  spatial  resolution  of  the central image, four  product types are associated to this acquisition mode. If  the  central  image  is  sampled  at  20  m/px,  the  associated  product  is  a  ''Full  Resolution Targeted'' observation (FRT). By reducing the spatial resolution of the  central  image  by  a  factor  2,  the  spatial  resolution  is  set  at  40  m/px  and  the  associated  products  are ''Half  Resolution  Short''  (HRS)  and ''Half  Resolution  Long'' (HRL) observations. An HRL sampled surface is twice as long as an HRS  observation.  Only  the  central  image  #07  is  processed  by  MarsSI  for  the  mineralogy identification. ATO observations are ''Along-Track Oversampled'' products resulting in incresing of the resolution up to 3 m/px.
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                  quot;text-align:center&amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              amp;               amp;                amp;                 amp;                  amp;                   quot;                   &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              amp;               amp;                amp;                 amp;                  quot;                  &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              amp;               amp;                amp;                 quot;                 &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              amp;               amp;                quot;                &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              amp;               quot;               &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              quot;              &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             quot;             &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            quot;            &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           quot;           &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          quot;          &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         quot;         &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        quot;        &amp; amp;  amp;   amp;    amp;     amp;      amp;       quot;       &amp; amp;  amp;   amp;    amp;     amp;      quot;      &amp; amp;  amp;   amp;    amp;     quot;     &amp; amp;  amp;   amp;    quot;    &amp; amp;  amp;   quot;   &amp; amp;  quot;  &amp; quot; &quot;">'''HRL''': 36 m/px ||<style="&quot; &amp; quot;  &amp; amp;  quot;   &amp; amp;  amp;   quot;    &amp; amp;  amp;   amp;    quot;     &amp; amp;  amp;   amp;    amp;     quot;      &amp; amp;  amp;   amp;    amp;     amp;      quot;       &amp; amp;  amp;   amp;    amp;     amp;      amp;       quot;        &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        quot;         &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         quot;          &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          quot;           &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           quot;            &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            quot;             &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             quot;              &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              quot;               &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              amp;               quot;                &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              amp;               amp;                quot;                 &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              amp;               amp;                amp;                 quot;                  &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              amp;               amp;                amp;                 amp;                  quot;                   &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              amp;               amp;                amp;                 amp;                  amp;                   quot;text-align:center&amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              amp;               amp;                amp;                 amp;                  amp;                   quot;                   &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              amp;               amp;                amp;                 amp;                  quot;                  &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              amp;               amp;                amp;                 quot;                 &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              amp;               amp;                quot;                &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              amp;               quot;               &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             amp;              quot;              &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            amp;             quot;             &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           amp;            quot;            &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          amp;           quot;           &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         amp;          quot;          &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        amp;         quot;         &amp; amp;  amp;   amp;    amp;     amp;      amp;       amp;        quot;        &amp; amp;  amp;   amp;    amp;     amp;      amp;       quot;       &amp; amp;  amp;   amp;    amp;     amp;      quot;      &amp; amp;  amp;   amp;    amp;     quot;     &amp; amp;  amp;   amp;    quot;    &amp; amp;  amp;   quot;   &amp; amp;  quot;  &amp; quot; &quot;">'''ATO''': 3-12 m/px ||
|| {{attachment:FRT.png||width="200"}} || {{attachment:HRS.png||width="200"}} || {{attachment:HRL.png||width="200"}} || {{attachment:ATO.png||width="200"}} ||




=== The survey mode (nadir pointing) ===
This mode was designed to estimate key locations for further analysis with the targeted mode as it covers wider areas and produces lower spatial resolution data than the ''targeted ''mode. The  instrument acquires multispectral  images  using  fixed  pointing  where  the  emission  angle  is  set  at  0°  (with specific bands chosen over the 544 spectral bands, in order to identify principal  minerals).  There  are different  types  of  observations  using  this  acquisition  mode:

 * ''Multispectral Survey''  (MSP): 200 m/px and 55 channels
 * Hyperspectral Survey (HSP): 200 m/px and 154 channels
 * ''Multispectral Window'' (MSW): 100 m/px

== Processing CRISM data ==

From the “Maps” tab, zoom-in  on  your  region  of  interest,  you  can display  the  THEMIS mosaic   for   more   precision,   and   then   display   the   CRISM   FRTHRLHRS07 layer  corresponding  to  the  central  image  of  the  targeted  sequence.  You  get  all  CRISM stamps  that  appear  in  red. You can use the “Select” button to choose the stamp you desire.  You  can  choose  several  stamps  by  clicking  on  several  stamps,  or  by  dragging your mouse to select adjacent stamps. You can also use the “Search” button for more options.

To add your desired stamps to your cart click on “Add” in the “Cart” window: you can notice in the “Cart” window that different data were added: the TRDR files and the DDR 
files in Short (VNIR) and Long (IR) wavelength ranges, “S” and “L”. Only the “L” cubes are used in the CRISM processing and are needed for further processing in MarsSI, but you can also download the “S” cubes for your own use. Then, go to the “Workspace” tab.

Your CRISM TRDR and DDR “L” files  appear in the window “Data to process”. If not, you may already have processed them yourself, or someone else may have processed them, then they may already be in the “Data processed” window. If the data have not been processed, you will have to go download and process the TRDR and DDR cubes by clicking on the “Process” button in the “Data to process” button.

The  TRDR  cube  containing  the  reflectance  values  in  the  infrared  range  will  be processed  using  an  implementation  of  the  CAT  pipeline  (CRISM  Analysis  Tools,  an add-on to IDL/ENVI available from the CRISM team (Murchie et al., 2007; Pelkey et al., 2007)). The cube will be corrected for the observation geometry (reflectance divided by the  cosine  of  the  incidence  angle,  available  in  the  associated  DDR  cube)  and  for absorptions  due  to  atmospheric  CO2 using  the  CAT  algorithm  developed  for  CRISM based on the ‘volcano-scan’ approach (McGuire et al., 2009). 




== Data names ==
The CRISM naming convention is the following:

{{{
(ClassType)(ObsID)_(Counter)_(Activity)(SensorID)_(Filetype).(EXT)
}}}
 * `ClassType`: FRT, HRS, HRL, ATO, MSP, HSP, MSW, ...
 * `ObsID`: observation ID
 * `Counter`: image number of the ''targeted ''sequence (only the n°7 is used in MarsSI). In the ''survey ''mode, this corresponds to 1
 * `Activity`: subtype of product: IF stands for reflectance data (I/F unit), DE for ancillary  data (''e.g.'' latitude, longitude, incidence, emission, phase angle
 * `SensorID`: S detector (Short wavelenghts) or L (Long wavelenghts)
 * `Filetype`: type of dataset: TRR3 are calibrated data cubes, DDR1 companion data  cube  containing the  ancillary  data

Ex: `FRT000A82E_07_IF164L_TRR3.IMG` correponds to calibrated   data   cube   containing   the  reflectance data (I/F unit) in the IR range (from 1002 to 3920 nm) of the central  image (corresponding to the “07” image of the ''targeted ''sequence) of an FRT  observation.