Get the pixel Size
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Hello,
I have a simple problem and reading different forums didn't help me to resolve it. I need for my ImageJ Plugins to attribute to a variable "x" the value of the pixel size in "µm" used in my pre-calibrated "image1". It would really help me if someone can help me on this case. Thanks very much. Ben |
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Hi Ben,
each ImagePlus [1] has a method called ``getCalibration()``. It returns the Calibration [2] instance of the ImagePlus. The Calibration Object contains all the methods you need. ``getUnit()`` returns a String to check if the unit is µm. ``getX(double x)`` converts a pixel value into a physical unit. Best regards Michael [1]: http://rsb.info.nih.gov/ij/developer/api/ij/ImagePlus.html [2]: http://rsb.info.nih.gov/ij/developer/api/ij/measure/Calibration.html On 31.01.2016 20:37, BenDehap wrote: > Hello, > > I have a simple problem and reading different forums didn't help me to > resolve it. > > I need for my ImageJ Plugins to attribute to a variable "x" the value of the > pixel size in "µm" used in my pre-calibrated "image1". > > It would really help me if someone can help me on this case. > > Thanks very much. > > Ben > > > > -- > View this message in context: http://imagej.1557.x6.nabble.com/Get-the-pixel-Size-tp5015501.html > Sent from the ImageJ mailing list archive at Nabble.com. > > -- > ImageJ mailing list: http://imagej.nih.gov/ij/list.html > -- ImageJ mailing list: http://imagej.nih.gov/ij/list.html |
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Hello Michael, First thank you for your answer, someone give me a simple way to resolve my problem as following : getPixelSize (unit, pixelWidth, pixelHeight); if (unit=="microns"){ x=pixelWidth;} else exit ("No calibration"); but i seen that the method you propose is widely used on forums. Would it be possible to show me an example of code using "x" for the value of the pixel witdh and "image1" for the name of my image. I don't know if you have the time to do it, but i'm a coding beginner and i feell a bit lost. Thanks anyway. Ben 2016-02-01 11:15 GMT+01:00 Michael Entrup [via ImageJ] <[hidden email]>: Hi Ben, |
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Please excuse me for piggy-backing on this discussion, but…
With the rise in Stack processing - are there similar mechanisms to record, remember, and report back on the depth of voxels? Simplest would be “getVoxelSize(unit, voxelWidth, voxelHeight, voxelDepth)” - but…I’ll take what I can get. Pressing my luck - it’s common for slices in a stack to be less regularly spaced than, say, rows in an image. Is there any mechanism for mapping slice number -> z value? — Kenneth Sloan [hidden email] <mailto:[hidden email]> Vision is the art of seeing what is invisible to others. > On Feb 1, 2016, at 07:45, BenDehap <[hidden email]> wrote: > > Hello Michael, > > First thank you for your answer, someone give me a simple way to resolve my > problem as following : > > > getPixelSize (unit, pixelWidth, pixelHeight); > if (unit=="microns"){ > x=pixelWidth;} > else exit ("No calibration"); > > but i seen that the method you propose is widely used on forums. > Would it be possible to show me an example of code using "x" for the value > of the pixel witdh and "image1" for the name of my image. > > I don't know if you have the time to do it, but i'm a coding beginner and i > feell a bit lost. > > Thanks anyway. > > Ben > > > 2016-02-01 11:15 GMT+01:00 Michael Entrup [via ImageJ] < > [hidden email]>: > >> Hi Ben, >> >> each ImagePlus [1] has a method called ``getCalibration()``. It returns >> the Calibration [2] instance of the ImagePlus. The Calibration Object >> contains all the methods you need. ``getUnit()`` returns a String to >> check if the unit is µm. ``getX(double x)`` converts a pixel value into >> a physical unit. >> >> Best regards >> Michael >> >> [1]: http://rsb.info.nih.gov/ij/developer/api/ij/ImagePlus.html >> [2]: http://rsb.info.nih.gov/ij/developer/api/ij/measure/Calibration.html >> >> >> On 31.01.2016 20:37, BenDehap wrote: >> >>> Hello, >>> >>> I have a simple problem and reading different forums didn't help me to >>> resolve it. >>> >>> I need for my ImageJ Plugins to attribute to a variable "x" the value of >> the >>> pixel size in "µm" used in my pre-calibrated "image1". >>> >>> It would really help me if someone can help me on this case. >>> >>> Thanks very much. >>> >>> Ben >>> >>> >>> >>> -- >>> View this message in context: >> http://imagej.1557.x6.nabble.com/Get-the-pixel-Size-tp5015501.html >>> Sent from the ImageJ mailing list archive at Nabble.com. >>> >>> -- >>> ImageJ mailing list: http://imagej.nih.gov/ij/list.html >>> >> >> -- >> ImageJ mailing list: http://imagej.nih.gov/ij/list.html >> >> >> ------------------------------ >> If you reply to this email, your message will be added to the discussion >> below: >> http://imagej.1557.x6.nabble.com/Get-the-pixel-Size-tp5015501p5015507.html >> To unsubscribe from Get the pixel Size, click here >> < >> . >> NAML >> <http://imagej.1557.x6.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml> >> > > > > > -- > View this message in context: http://imagej.1557.x6.nabble.com/Get-the-pixel-Size-tp5015501p5015510.html > Sent from the ImageJ mailing list archive at Nabble.com. > > -- > ImageJ mailing list: http://imagej.nih.gov/ij/list.html -- ImageJ mailing list: http://imagej.nih.gov/ij/list.html |
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Hi Kenneth,
please consult the documentation: http://imagej.net/developer/macro/functions.html#getVoxelSize Jan On 01.02.16 20:13, Kenneth Sloan wrote: > Please excuse me for piggy-backing on this discussion, but… > > With the rise in Stack processing - are there similar mechanisms to record, remember, and report back on the depth of voxels? Simplest would be “getVoxelSize(unit, voxelWidth, voxelHeight, voxelDepth)” - but…I’ll take what I can get. > > Pressing my luck - it’s common for slices in a stack to be less regularly spaced than, say, rows in an image. Is there any mechanism for mapping slice number -> z value? > > — > Kenneth Sloan > [hidden email] <mailto:[hidden email]> > Vision is the art of seeing what is invisible to others. > >> On Feb 1, 2016, at 07:45, BenDehap <[hidden email]> wrote: >> >> Hello Michael, >> >> First thank you for your answer, someone give me a simple way to resolve my >> problem as following : >> >> >> getPixelSize (unit, pixelWidth, pixelHeight); >> if (unit=="microns"){ >> x=pixelWidth;} >> else exit ("No calibration"); >> >> but i seen that the method you propose is widely used on forums. >> Would it be possible to show me an example of code using "x" for the value >> of the pixel witdh and "image1" for the name of my image. >> >> I don't know if you have the time to do it, but i'm a coding beginner and i >> feell a bit lost. >> >> Thanks anyway. >> >> Ben >> >> >> 2016-02-01 11:15 GMT+01:00 Michael Entrup [via ImageJ] < >> [hidden email]>: >> >>> Hi Ben, >>> >>> each ImagePlus [1] has a method called ``getCalibration()``. It returns >>> the Calibration [2] instance of the ImagePlus. The Calibration Object >>> contains all the methods you need. ``getUnit()`` returns a String to >>> check if the unit is µm. ``getX(double x)`` converts a pixel value into >>> a physical unit. >>> >>> Best regards >>> Michael >>> >>> [1]: http://rsb.info.nih.gov/ij/developer/api/ij/ImagePlus.html >>> [2]: http://rsb.info.nih.gov/ij/developer/api/ij/measure/Calibration.html >>> >>> >>> On 31.01.2016 20:37, BenDehap wrote: >>> >>>> Hello, >>>> >>>> I have a simple problem and reading different forums didn't help me to >>>> resolve it. >>>> >>>> I need for my ImageJ Plugins to attribute to a variable "x" the value of >>> the >>>> pixel size in "µm" used in my pre-calibrated "image1". >>>> >>>> It would really help me if someone can help me on this case. >>>> >>>> Thanks very much. >>>> >>>> Ben >>>> >>>> >>>> >>>> -- >>>> View this message in context: >>> http://imagej.1557.x6.nabble.com/Get-the-pixel-Size-tp5015501.html >>>> Sent from the ImageJ mailing list archive at Nabble.com. >>>> >>>> -- >>>> ImageJ mailing list: http://imagej.nih.gov/ij/list.html >>>> >>> >>> -- >>> ImageJ mailing list: http://imagej.nih.gov/ij/list.html >>> >>> >>> ------------------------------ >>> If you reply to this email, your message will be added to the discussion >>> below: >>> http://imagej.1557.x6.nabble.com/Get-the-pixel-Size-tp5015501p5015507.html >>> To unsubscribe from Get the pixel Size, click here >>> < >>> . >>> NAML >>> <http://imagej.1557.x6.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml> >>> >> >> >> >> >> -- >> View this message in context: http://imagej.1557.x6.nabble.com/Get-the-pixel-Size-tp5015501p5015510.html >> Sent from the ImageJ mailing list archive at Nabble.com. >> >> -- >> ImageJ mailing list: http://imagej.nih.gov/ij/list.html > > > -- > ImageJ mailing list: http://imagej.nih.gov/ij/list.html > -- ImageJ mailing list: http://imagej.nih.gov/ij/list.html |
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In reply to this post by Kenneth Sloan-2
http://rsbweb.nih.gov/ij/developer/macro/functions.html
getVoxelSize(width, height, depth, unit) ========================================================================= Michael Cammer, Microscopy Core & Skirball Institute, NYU Langone Medical Center Cell: 914-309-3270 ** Office: Skirball 2nd Floor main office, back right ** http://ocs.med.nyu.edu/microscopy & http://microscopynotes.com/ -----Original Message----- From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Kenneth Sloan Sent: Monday, February 01, 2016 2:13 PM To: [hidden email] Subject: Re: Get the pixel Size Please excuse me for piggy-backing on this discussion, but… With the rise in Stack processing - are there similar mechanisms to record, remember, and report back on the depth of voxels? Simplest would be “getVoxelSize(unit, voxelWidth, voxelHeight, voxelDepth)” - but…I’ll take what I can get. Pressing my luck - it’s common for slices in a stack to be less regularly spaced than, say, rows in an image. Is there any mechanism for mapping slice number -> z value? — ------------------------------------------------------------ This email message, including any attachments, is for the sole use of the intended recipient(s) and may contain information that is proprietary, confidential, and exempt from disclosure under applicable law. Any unauthorized review, use, disclosure, or distribution is prohibited. If you have received this email in error please notify the sender by return email and delete the original message. Please note, the recipient should check this email and any attachments for the presence of viruses. The organization accepts no liability for any damage caused by any virus transmitted by this email. ================================= -- ImageJ mailing list: http://imagej.nih.gov/ij/list.html |
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Thanks. Any hope for irregular slice spacing?
— Kenneth Sloan [hidden email] <mailto:[hidden email]> Vision is the art of seeing what is invisible to others. > On Feb 1, 2016, at 13:22, Cammer, Michael <[hidden email]> wrote: > > http://rsbweb.nih.gov/ij/developer/macro/functions.html > getVoxelSize(width, height, depth, unit) > > > ========================================================================= > Michael Cammer, Microscopy Core & Skirball Institute, NYU Langone Medical Center > Cell: 914-309-3270 ** Office: Skirball 2nd Floor main office, back right ** > http://ocs.med.nyu.edu/microscopy & http://microscopynotes.com/ > > > -----Original Message----- > From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of Kenneth Sloan > Sent: Monday, February 01, 2016 2:13 PM > To: [hidden email] > Subject: Re: Get the pixel Size > > Please excuse me for piggy-backing on this discussion, but… > > With the rise in Stack processing - are there similar mechanisms to record, remember, and report back on the depth of voxels? Simplest would be “getVoxelSize(unit, voxelWidth, voxelHeight, voxelDepth)” - but…I’ll take what I can get. > > Pressing my luck - it’s common for slices in a stack to be less regularly spaced than, say, rows in an image. Is there any mechanism for mapping slice number -> z value? > > — > > > ------------------------------------------------------------ > This email message, including any attachments, is for the sole use of the intended recipient(s) and may contain information that is proprietary, confidential, and exempt from disclosure under applicable law. Any unauthorized review, use, disclosure, or distribution is prohibited. If you have received this email in error please notify the sender by return email and delete the original message. Please note, the recipient should check this email and any attachments for the presence of viruses. The organization accepts no liability for any damage caused by any virus transmitted by this email. > ================================= > > > -- > ImageJ mailing list: http://imagej.nih.gov/ij/list.html -- ImageJ mailing list: http://imagej.nih.gov/ij/list.html |
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In reply to this post by Kenneth Sloan-2
Hi Kenneth,
the Calibration object has a pixelDepth field. For non-homegeneous z-spacing, I suggest to use TrakEM2 where this is possible and the norm. It also has a built in mechanism to calculate this spacing from aligned serial section image data http://fiji.sc/Fiji/Z-Spacing_Correction based on this paper http://arxiv.org/pdf/1411.6970v2.pdf Best, Stephan On Mon, 2016-02-01 at 13:13 -0600, Kenneth Sloan wrote: > Please excuse me for piggy-backing on this discussion, but… > > With the rise in Stack processing - are there similar mechanisms to record, remember, and report back on the depth of voxels? Simplest would be “getVoxelSize(unit, voxelWidth, voxelHeight, voxelDepth)” - but…I’ll take what I can get. > > Pressing my luck - it’s common for slices in a stack to be less regularly spaced than, say, rows in an image. Is there any mechanism for mapping slice number -> z value? > > — > Kenneth Sloan > [hidden email] <mailto:[hidden email]> > Vision is the art of seeing what is invisible to others. > > > On Feb 1, 2016, at 07:45, BenDehap <[hidden email]> wrote: > > > > Hello Michael, > > > > First thank you for your answer, someone give me a simple way to resolve my > > problem as following : > > > > > > getPixelSize (unit, pixelWidth, pixelHeight); > > if (unit=="microns"){ > > x=pixelWidth;} > > else exit ("No calibration"); > > > > but i seen that the method you propose is widely used on forums. > > Would it be possible to show me an example of code using "x" for the value > > of the pixel witdh and "image1" for the name of my image. > > > > I don't know if you have the time to do it, but i'm a coding beginner and i > > feell a bit lost. > > > > Thanks anyway. > > > > Ben > > > > > > 2016-02-01 11:15 GMT+01:00 Michael Entrup [via ImageJ] < > > [hidden email]>: > > > >> Hi Ben, > >> > >> each ImagePlus [1] has a method called ``getCalibration()``. It returns > >> the Calibration [2] instance of the ImagePlus. The Calibration Object > >> contains all the methods you need. ``getUnit()`` returns a String to > >> check if the unit is µm. ``getX(double x)`` converts a pixel value into > >> a physical unit. > >> > >> Best regards > >> Michael > >> > >> [1]: http://rsb.info.nih.gov/ij/developer/api/ij/ImagePlus.html > >> [2]: http://rsb.info.nih.gov/ij/developer/api/ij/measure/Calibration.html > >> > >> > >> On 31.01.2016 20:37, BenDehap wrote: > >> > >>> Hello, > >>> > >>> I have a simple problem and reading different forums didn't help me to > >>> resolve it. > >>> > >>> I need for my ImageJ Plugins to attribute to a variable "x" the value of > >> the > >>> pixel size in "µm" used in my pre-calibrated "image1". > >>> > >>> It would really help me if someone can help me on this case. > >>> > >>> Thanks very much. > >>> > >>> Ben > >>> > >>> > >>> > >>> -- > >>> View this message in context: > >> http://imagej.1557.x6.nabble.com/Get-the-pixel-Size-tp5015501.html > >>> Sent from the ImageJ mailing list archive at Nabble.com. > >>> > >>> -- > >>> ImageJ mailing list: http://imagej.nih.gov/ij/list.html > >>> > >> > >> -- > >> ImageJ mailing list: http://imagej.nih.gov/ij/list.html > >> > >> > >> ------------------------------ > >> If you reply to this email, your message will be added to the discussion > >> below: > >> http://imagej.1557.x6.nabble.com/Get-the-pixel-Size-tp5015501p5015507.html > >> To unsubscribe from Get the pixel Size, click here > >> < > >> . > >> NAML > >> <http://imagej.1557.x6.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml> > >> > > > > > > > > > > -- > > View this message in context: http://imagej.1557.x6.nabble.com/Get-the-pixel-Size-tp5015501p5015510.html > > Sent from the ImageJ mailing list archive at Nabble.com. > > > > -- > > ImageJ mailing list: http://imagej.nih.gov/ij/list.html > > > -- > ImageJ mailing list: http://imagej.nih.gov/ij/list.html -- ImageJ mailing list: http://imagej.nih.gov/ij/list.html |
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thank you - this looks perfect.
— Kenneth Sloan [hidden email] <mailto:[hidden email]> Vision is the art of seeing what is invisible to others. > On Feb 1, 2016, at 13:28, Saalfeld, Stephan <[hidden email]> wrote: > > Hi Kenneth, > > the Calibration object has a pixelDepth field. > > For non-homegeneous z-spacing, I suggest to use TrakEM2 where this is > possible and the norm. It also has a built in mechanism to calculate > this spacing from aligned serial section image data > > http://fiji.sc/Fiji/Z-Spacing_Correction <http://fiji.sc/Fiji/Z-Spacing_Correction> > > based on this paper > > http://arxiv.org/pdf/1411.6970v2.pdf <http://arxiv.org/pdf/1411.6970v2.pdf> > > Best, > Stephan > > > > On Mon, 2016-02-01 at 13:13 -0600, Kenneth Sloan wrote: >> Please excuse me for piggy-backing on this discussion, but… >> >> With the rise in Stack processing - are there similar mechanisms to record, remember, and report back on the depth of voxels? Simplest would be “getVoxelSize(unit, voxelWidth, voxelHeight, voxelDepth)” - but…I’ll take what I can get. >> >> Pressing my luck - it’s common for slices in a stack to be less regularly spaced than, say, rows in an image. Is there any mechanism for mapping slice number -> z value? >> >> — >> Kenneth Sloan >> [hidden email] <mailto:[hidden email]> <mailto:[hidden email] <mailto:[hidden email]>> >> Vision is the art of seeing what is invisible to others. >> >>> On Feb 1, 2016, at 07:45, BenDehap <[hidden email]> wrote: >>> >>> Hello Michael, >>> >>> First thank you for your answer, someone give me a simple way to resolve my >>> problem as following : >>> >>> >>> getPixelSize (unit, pixelWidth, pixelHeight); >>> if (unit=="microns"){ >>> x=pixelWidth;} >>> else exit ("No calibration"); >>> >>> but i seen that the method you propose is widely used on forums. >>> Would it be possible to show me an example of code using "x" for the value >>> of the pixel witdh and "image1" for the name of my image. >>> >>> I don't know if you have the time to do it, but i'm a coding beginner and i >>> feell a bit lost. >>> >>> Thanks anyway. >>> >>> Ben >>> >>> >>> 2016-02-01 11:15 GMT+01:00 Michael Entrup [via ImageJ] < >>> [hidden email]>: >>> >>>> Hi Ben, >>>> >>>> each ImagePlus [1] has a method called ``getCalibration()``. It returns >>>> the Calibration [2] instance of the ImagePlus. The Calibration Object >>>> contains all the methods you need. ``getUnit()`` returns a String to >>>> check if the unit is µm. ``getX(double x)`` converts a pixel value into >>>> a physical unit. >>>> >>>> Best regards >>>> Michael >>>> >>>> [1]: http://rsb.info.nih.gov/ij/developer/api/ij/ImagePlus.html >>>> [2]: http://rsb.info.nih.gov/ij/developer/api/ij/measure/Calibration.html >>>> >>>> >>>> On 31.01.2016 20:37, BenDehap wrote: >>>> >>>>> Hello, >>>>> >>>>> I have a simple problem and reading different forums didn't help me to >>>>> resolve it. >>>>> >>>>> I need for my ImageJ Plugins to attribute to a variable "x" the value of >>>> the >>>>> pixel size in "µm" used in my pre-calibrated "image1". >>>>> >>>>> It would really help me if someone can help me on this case. >>>>> >>>>> Thanks very much. >>>>> >>>>> Ben >>>>> >>>>> >>>>> >>>>> -- >>>>> View this message in context: >>>> http://imagej.1557.x6.nabble.com/Get-the-pixel-Size-tp5015501.html >>>>> Sent from the ImageJ mailing list archive at Nabble.com. >>>>> >>>>> -- >>>>> ImageJ mailing list: http://imagej.nih.gov/ij/list.html >>>>> >>>> >>>> -- >>>> ImageJ mailing list: http://imagej.nih.gov/ij/list.html >>>> >>>> >>>> ------------------------------ >>>> If you reply to this email, your message will be added to the discussion >>>> below: >>>> http://imagej.1557.x6.nabble.com/Get-the-pixel-Size-tp5015501p5015507.html >>>> To unsubscribe from Get the pixel Size, click here >>>> < >>>> . >>>> NAML >>>> <http://imagej.1557.x6.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml> >>>> >>> >>> >>> >>> >>> -- >>> View this message in context: http://imagej.1557.x6.nabble.com/Get-the-pixel-Size-tp5015501p5015510.html >>> Sent from the ImageJ mailing list archive at Nabble.com. >>> >>> -- >>> ImageJ mailing list: http://imagej.nih.gov/ij/list.html >> >> >> -- >> ImageJ mailing list: http://imagej.nih.gov/ij/list.html <http://imagej.nih.gov/ij/list.html> > > -- > ImageJ mailing list: http://imagej.nih.gov/ij/list.html <http://imagej.nih.gov/ij/list.html> -- ImageJ mailing list: http://imagej.nih.gov/ij/list.html |
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In reply to this post by BenDehap
Hi Ben,
in your first mail you wrote about "my ImageJ Plugins" and that is why I was assuming you will need information on how to get the pixel size in Java. If you want to write a macro, the code from your last mail is nearly everything you need. Just make sure "image1" is selected before running the macro. If "image1" is the tile of the image, you can use this modified version: var x = getNumber("Enter a value for x", 1); var unit, pixelwidth, pixelHeight; selectWindow("image1"); getPixelSize (unit, pixelWidth, pixelHeight); var x_cal = x; if (unit=="microns"){ x_cal = pixelWidth * x; } else IJ.log("No calibration"); IJ.log("x is "+ x_cal + unit); To learn how to program macros have a look at [1], [2] and for a command reference [3]. Best regards Michael [1]: http://imagej.net/Introduction_into_Macro_Programming [2]: http://rsbweb.nih.gov/ij/developer/macro/macros.html [3]: http://rsbweb.nih.gov/ij/developer/macro/functions.html On 01.02.2016 14:45, BenDehap wrote: > Hello Michael, > > First thank you for your answer, someone give me a simple way to resolve my > problem as following : > > > getPixelSize (unit, pixelWidth, pixelHeight); > if (unit=="microns"){ > x=pixelWidth;} > else exit ("No calibration"); > > but i seen that the method you propose is widely used on forums. > Would it be possible to show me an example of code using "x" for the value > of the pixel witdh and "image1" for the name of my image. > > I don't know if you have the time to do it, but i'm a coding beginner and i > feell a bit lost. > > Thanks anyway. > > Ben > > > 2016-02-01 11:15 GMT+01:00 Michael Entrup [via ImageJ] < > [hidden email]>: > >> Hi Ben, >> >> each ImagePlus [1] has a method called ``getCalibration()``. It returns >> the Calibration [2] instance of the ImagePlus. The Calibration Object >> contains all the methods you need. ``getUnit()`` returns a String to >> check if the unit is µm. ``getX(double x)`` converts a pixel value into >> a physical unit. >> >> Best regards >> Michael >> >> [1]: http://rsb.info.nih.gov/ij/developer/api/ij/ImagePlus.html >> [2]: http://rsb.info.nih.gov/ij/developer/api/ij/measure/Calibration.html >> >> >> On 31.01.2016 20:37, BenDehap wrote: >> >>> Hello, >>> >>> I have a simple problem and reading different forums didn't help me to >>> resolve it. >>> >>> I need for my ImageJ Plugins to attribute to a variable "x" the value of >> the >>> pixel size in "µm" used in my pre-calibrated "image1". >>> >>> It would really help me if someone can help me on this case. >>> >>> Thanks very much. >>> >>> Ben >>> >>> >>> >>> -- >>> View this message in context: >> http://imagej.1557.x6.nabble.com/Get-the-pixel-Size-tp5015501.html >>> Sent from the ImageJ mailing list archive at Nabble.com. >>> >>> -- >>> ImageJ mailing list: http://imagej.nih.gov/ij/list.html >>> >> >> -- >> ImageJ mailing list: http://imagej.nih.gov/ij/list.html >> >> >> ------------------------------ >> If you reply to this email, your message will be added to the discussion >> below: >> http://imagej.1557.x6.nabble.com/Get-the-pixel-Size-tp5015501p5015507.html >> To unsubscribe from Get the pixel Size, click here >> < >> . >> NAML >> <http://imagej.1557.x6.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml> >> > > > > > -- > View this message in context: http://imagej.1557.x6.nabble.com/Get-the-pixel-Size-tp5015501p5015510.html > Sent from the ImageJ mailing list archive at Nabble.com. > > -- > ImageJ mailing list: http://imagej.nih.gov/ij/list.html > -- ImageJ mailing list: http://imagej.nih.gov/ij/list.html |
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