/*
* Added in Formulatrix.Integrations.ImagerLink.dll v2.0.0.73 (RockImager v2.0.3.18),
* which is supposed to be more recent than v2.0.1.136 (RockImager v2.0.1.136).
*/
/// <summary>
/// Gets an <c>ICapturePointList</c> to image for this plateID on the specified <c>imagingID</c>.
/// </summary>
/// <param name="robot"></param>
/// <param name="plateID"></param>
/// <param name="imagingID">The imaging ID started for this run.</param>
/// <param name="includeOverview"></param>
/// <param name="userSelectionCaptureProfileID"></param>
/// <returns></returns>
/// <remarks>
/// Added in Formulatrix.Integrations.ImagerLink.dll v2.0.0.73 (RockImager v2.0.3.18),
/// which is supposed to be more recent than v2.0.1.136 (RockImager v2.0.1.136).
/// </remarks>
ICapturePointList ICaptureProvider.GetCapturePoints(Formulatrix.Integrations.ImagerLink.IRobot robot, string plateID, string imagingID, bool includeOverview, int userSelectionCaptureProfileID)
{
// TODO: Add CaptureProvider.GetCapturePoints implementation
//return null;
if (_log.IsInfoEnabled)
{
_log.Info("Called ICaptureProvider.GetCapturePoints(" + Robot.ToString(robot) + ", \"" + plateID + "\", \"" + imagingID + "\", " + includeOverview + ", " + userSelectionCaptureProfileID + ")");
}
CapturePointList capturePointList = null;
// OPPF Vis
if (1 == userSelectionCaptureProfileID)
{
_log.Info("Returning empty ICapturePointList");
capturePointList = new CapturePointList();
}
// OPPF UV
else if (2 == userSelectionCaptureProfileID)
{
_log.Info("Returning ICapturePointList with PlateCaptureProfile and CapturePoints set to an ICaptureProfile with one IProperty of \"LightPath\" = \"1\"");
// Create the property array containing the UV LightPath property
IProperty[] properties = new OPPF.Integrations.ImagerLink.Property[1];
properties[0] = new OPPF.Integrations.ImagerLink.Property("LightPath", "1");
// Create a new CaptureProfile and apply the UV LightPath property
CaptureProfile captureProfile = new CaptureProfile();
captureProfile.SetProfileID("2");
captureProfile.SetProperties(properties);
// Create the array of capture profiles to be used for each drop - in this case only one
CaptureProfile[] captureProfiles = new CaptureProfile[1];
captureProfiles[0] = captureProfile;
// Create a CapturePoint for each drop using RockImager's default drop position and the UV LightPath
// TODO: Get number of wells and drops from plate type
int wells = 96;
CapturePoint[] capturePoints = new CapturePoint[wells];
for (int i = 0; i < wells; i++)
{
// TODO: Loop over drops - currently assumes one drop per well
capturePoints[i] = new CapturePoint(i + 1, 1, captureProfiles, null, null, "1", RegionType.Drop);
}
// Create the CapturePointList and set the PlateCaptureProfile and CapturePoints
// NB I don't think RockImager actually uses the PlateCaptureProfile
capturePointList = new CapturePointList();
capturePointList.SetPlateCaptureProfile(captureProfile);
capturePointList.SetCapturePoints(capturePoints);
}
return(capturePointList);
}
/*
* Added in Formulatrix.Integrations.ImagerLink.dll v2.0.0.73 (RockImager v2.0.3.18),
* which is supposed to be more recent than v2.0.1.136 (RockImager v2.0.1.136).
*/
/// <summary>
/// Gets an <c>ICapturePointList</c> to image for this plateID on the specified <c>imagingID</c>.
/// </summary>
/// <param name="robot"></param>
/// <param name="plateID"></param>
/// <param name="imagingID">The imaging ID started for this run.</param>
/// <param name="includeOverview"></param>
/// <param name="userSelectionCaptureProfileID"></param>
/// <returns></returns>
/// <remarks>
/// Added in Formulatrix.Integrations.ImagerLink.dll v2.0.0.73 (RockImager v2.0.3.18),
/// which is supposed to be more recent than v2.0.1.136 (RockImager v2.0.1.136).
/// </remarks>
public ICapturePointList GetCapturePoints(Formulatrix.Integrations.ImagerLink.IRobot robot, string plateID, string imagingID, bool includeOverview, int userSelectionCaptureProfileID)
{
// TODO: Add CaptureProvider.GetCapturePoints implementation
//return null;
if (_log.IsInfoEnabled)
{
_log.Info("Called ICaptureProvider.GetCapturePoints(" + Robot.ToString(robot) + ", \"" + plateID + "\", \"" + imagingID + "\", " + includeOverview + ", " + userSelectionCaptureProfileID + ")");
}
CapturePointList capturePointList = null;
// If 0 then it is a scheduled imaging, need to find the inspection type (light path)
if (userSelectionCaptureProfileID == 0)
{
userSelectionCaptureProfileID = GetLightPathForScheduledImaging(imagingID);
}
IPlateType plateType = _pip.GetPlateType(robot, _pip.GetPlateInfo(robot, plateID).PlateTypeID);
int[] sampleLocations = GetSampleLocations(plateID);
// OPPF Vis
if (1 == userSelectionCaptureProfileID)
{
_log.Info("Returning ICapturePointList with CapturePoints for specific drops to be imaged, with a null ICaptureProfile (Should assume visible LightPath)");
capturePointList = new CapturePointList();
CapturePoint[] capturePoints = GetCapturePointsDetails(sampleLocations, plateType, null);
capturePointList.SetCapturePoints(capturePoints);
}
// OPPF UV
else if (2 == userSelectionCaptureProfileID)
{
_log.Info("Returning ICapturePointList with PlateCaptureProfile and CapturePoints set to an ICaptureProfile with one IProperty of \"LightPath\" = \"1\"");
// Create the property array containing the UV LightPath property
IProperty[] properties = new global::OPPF.Integrations.ImagerLink.Property[1];
properties[0] = new global::OPPF.Integrations.ImagerLink.Property("LightPath", "1");
// Create a new CaptureProfile and apply the UV LightPath property
CaptureProfile captureProfile = new CaptureProfile();
captureProfile.SetProfileID("2");
captureProfile.SetProperties(properties);
// Create the array of capture profiles to be used for each drop - in this case only one
CaptureProfile[] captureProfiles = new CaptureProfile[1];
captureProfiles[0] = captureProfile;
// Get specific well and drop numbers to be imaged
CapturePoint[] capturePoints = GetCapturePointsDetails(sampleLocations, plateType, captureProfiles);
// Create the CapturePointList and set the PlateCaptureProfile and CapturePoints
// NB I don't think RockImager actually uses the PlateCaptureProfile
capturePointList = new CapturePointList();
capturePointList.SetPlateCaptureProfile(captureProfile);
capturePointList.SetCapturePoints(capturePoints);
}
// OPPF Teach 1
else if (3 == userSelectionCaptureProfileID)
{
_log.Info("Returning ICapturePointList with PlateCaptureProfile and CapturePoints set to an ICaptureProfile that only images the corners");
// Create the property array containing the UV LightPath property
IProperty[] properties = new global::OPPF.Integrations.ImagerLink.Property[1];
properties[0] = new global::OPPF.Integrations.ImagerLink.Property("LightPath", "0");
// Create a new CaptureProfile and apply the UV LightPath property
CaptureProfile captureProfile = new CaptureProfile();
captureProfile.SetProfileID("3");
captureProfile.SetProperties(properties);
// Create the array of capture profiles to be used for each drop - in this case only one
CaptureProfile[] captureProfiles = new CaptureProfile[1];
captureProfiles[0] = captureProfile;
// Create a CapturePoint for each drop using RockImager's default drop position and the vis LightPath
// TODO: Get number of wells and drops from plate type
CapturePoint[] capturePoints = new CapturePoint[4];
capturePoints[0] = new CapturePoint(1, 1, captureProfiles, null, null, "1", RegionType.Drop); // A1
capturePoints[1] = new CapturePoint(12, 1, captureProfiles, null, null, "1", RegionType.Drop); // A12
capturePoints[2] = new CapturePoint(85, 1, captureProfiles, null, null, "1", RegionType.Drop); // H1
capturePoints[3] = new CapturePoint(96, 1, captureProfiles, null, null, "1", RegionType.Drop); // H12
// Create the CapturePointList and set the PlateCaptureProfile and CapturePoints
// NB I don't think RockImager actually uses the PlateCaptureProfile
capturePointList = new CapturePointList();
capturePointList.SetPlateCaptureProfile(captureProfile);
capturePointList.SetCapturePoints(capturePoints);
}
// OPPF Teach 1-Full - Just to allow special handling in the IImageProcessor
else if (4 == userSelectionCaptureProfileID)
{
_log.Info("Returning ICapturePointList with PlateCaptureProfile and CapturePoints set to an ICaptureProfile that only images the corners");
// Create the property array containing the UV LightPath property
IProperty[] properties = new global::OPPF.Integrations.ImagerLink.Property[1];
properties[0] = new global::OPPF.Integrations.ImagerLink.Property("LightPath", "0");
// Create a new CaptureProfile and apply the UV LightPath property
CaptureProfile captureProfile = new CaptureProfile();
captureProfile.SetProfileID("4");
captureProfile.SetProperties(properties);
// Create the array of capture profiles to be used for each drop - in this case only one
CaptureProfile[] captureProfiles = new CaptureProfile[1];
captureProfiles[0] = captureProfile;
// Create a CapturePoint for each drop using RockImager's default drop position and the vis LightPath
// TODO: Get number of wells and drops from plate type
int wells = 96;
CapturePoint[] capturePoints = new CapturePoint[wells];
for (int i = 0; i < wells; i++)
{
// TODO: Loop over drops - currently assumes one drop per well
capturePoints[i] = new CapturePoint(i + 1, 1, captureProfiles, null, null, "1", RegionType.Drop);
}
// Create the CapturePointList and set the PlateCaptureProfile and CapturePoints
// NB I don't think RockImager actually uses the PlateCaptureProfile
capturePointList = new CapturePointList();
capturePointList.SetPlateCaptureProfile(captureProfile);
capturePointList.SetCapturePoints(capturePoints);
}
return(capturePointList);
}
/// <summary>
/// Returns specific drop locations to be imaged along with light path info as an array of CapturePoint objects
/// </summary>
/// <param name="sampleLocations"></param>
/// <param name="plateType"></param>
/// <param name="captureProfiles"></param>
/// <returns>CapturePoint array used by the GetCapturePoints method</returns>
private CapturePoint[] GetCapturePointsDetails(int[] sampleLocations, IPlateType plateType, CaptureProfile[] captureProfiles)
{
CapturePoint[] capturePoints = null;
int plateWells = plateType.NumRows * plateType.NumColumns;
int plateDrops = plateType.NumDrops;
int totalDrops = plateWells * plateDrops;
// If there are specific drops we only want to image those (there should be really, even if it's every drop)
if (sampleLocations != null && sampleLocations.Length > 0)
{
_log.Info("Received " + sampleLocations.Length + " locations, registering CapturePoints...");
capturePoints = new CapturePoint[sampleLocations.Length];
for (int i = 0; i < sampleLocations.Length; i++)
{
// ISPyB only stores drop numbers from the point view of 'total drops' e.g. 1-192 for a 96 well 2 drop plate
// Therefore we need to figure out which specific well number and drop number to pass to RockImager e.g. well 2 drop 1
int location = sampleLocations[i];
int div = location / plateDrops;
int mod = location % plateDrops;
int well = 0;
int drop = 0;
switch (plateDrops)
{
case 1:
well = location;
drop = 1;
break;
default:
if (mod == 0)
{
well = div;
drop = plateDrops;
}
else
{
well = ++div;
drop = mod;
}
break;
}
capturePoints[i] = new CapturePoint(well, drop, captureProfiles, null, null, "1", RegionType.Drop);
_log.Info("CapturePoint(" + well + ", " + drop + ", " + ((captureProfiles != null) && (captureProfiles[0].Properties[0].Value).Equals("1") ? "UV," : "Visible,") + " null, null, " + "1, " + RegionType.Drop + ") registered");
}
}
// In theory we should never reach here because there should always be specified sample locations (even if it's every drop) but as a safe catch all we can image every drop (probably on error)
else
{
_log.Error("No sample locations received! Registering CapturePoints for all drops...");
capturePoints = new CapturePoint[totalDrops];
int dropCounter = 1;
int wellCounter = 1;
for (int i = 0; i < totalDrops; i++)
{
// Loop over drops - track wells and drops independantly
capturePoints[i] = new CapturePoint(wellCounter, dropCounter, captureProfiles, null, null, "1", RegionType.Drop);
_log.Info("CapturePoint(" + wellCounter + ", " + dropCounter + ", " + ((captureProfiles != null) && (captureProfiles[0].Properties[0].Value).Equals("1") ? "UV," : "Visible,") + " null, null, " + "1, " + RegionType.Drop + ") registered");
if (dropCounter == plateDrops)
{
dropCounter = 1;
wellCounter++;
}
else
{
dropCounter++;
}
}
}
return(capturePoints);
}