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conda activate eman2
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<div>e2iminfo.py file.eer --header</div>
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<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures">0. <span class="Apple-tab-span" style="white-space:pre">
</span></span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>EER.acquisition_id: 20230523.193352.415</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>EER.camera_name: BM-Falcon</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>EER.commercial_name: Falcon 4</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>EER.compression: 65001</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>EER.eer_gain_reference: ImagesForProcessing/BM-Falcon/200kV/20230518_180445_EER_GainReference.gain</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>EER.exposure_time: 0.99720799999999998</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>EER.mean_dose_rate: 7.4649417694525013</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>EER.number_of_frames: 238</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>EER.sensor_image_height: 4096</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>EER.sensor_image_width: 4096</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>EER.sensor_pixel_size.height: 7.39449266e-11</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>EER.sensor_pixel_size.width: 7.39449266e-11</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>EER.serial_number: 20-35-A0X-XST</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>EER.timestamp: 2023-05-23T19:33:52.915710-05:00</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>EER.total_dose: 7.384066590322254</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>HostEndian: little</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>ImageEndian: little</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>apix_x: 1.0</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>apix_y: 1.0</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>apix_z: 1.0</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>changecount: 0</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>datatype: 7</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>is_complex: 0</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>is_complex_ri: 1</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>is_complex_x: 0</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>nx: 4096</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>ny: 4096</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>nz: 1</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>source_n: 0</span></p>
<p style="margin: 0px; font-style: normal; font-variant-caps: normal; font-stretch: normal; font-size: 17px; line-height: normal; font-family: "Andale Mono"; font-size-adjust: none; font-kerning: auto; font-variant-alternates: normal; font-variant-ligatures: normal; font-variant-numeric: normal; font-variant-east-asian: normal; font-variant-position: normal; font-feature-settings: normal; font-optical-sizing: auto; font-variation-settings: normal;">
<span style="font-variant-ligatures: no-common-ligatures"><span class="Apple-tab-span" style="white-space:pre"></span>source_path: Supervisor_20230523_190932_81_PRAFrac1_ultraufoil/Images-Disc1/GridSquare_23254874/Data/FoilHole_24224148_Data_24223466_24223468_20230523_193352_EER.eer</span></p>
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<div><span style="font-variant-ligatures: no-common-ligatures"><br>
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<div>Should work for any CryoEM file format to get header information. For most formats the A/pix information would wind up in apix_x, but it looks like this hasn't been implemented in EER at the moment. Will have to fix that...</div>
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<div>For programmatic work from Python:</div>
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<div>python</div>
<div>from EMAN2 import *</div>
<div>img=EMData("file.eer",0)<span class="Apple-tab-span" style="white-space:pre">
</span># 0 is the first image in the stack</div>
<div>print(img["EER.sensor_pixel_size.height"])</div>
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<div><span style="caret-color: rgb(0, 0, 0); color: rgb(0, 0, 0); letter-spacing: normal; text-transform: none; white-space: normal; word-spacing: 0px; text-decoration: none; -webkit-text-stroke-width: 0px; font-family: "Courier New"; font-size: 14px;">--------------------------------------------------------------------------------------</span><br style="font-family: "Courier New"; font-size: 14px;">
<font face="Courier New"><span style="font-size: 14px;">Steven Ludtke, Ph.D. <sludtke@bcm.edu> Baylor College of Medicine<br>
Charles C. Bell Jr., Professor of Structural Biology Dept. of Biochemistry <br>
Deputy Director, Advanced Technology Cores and Molecular Pharmacology<br>
Academic Director, CryoEM Core<br>
Co-Director CIBR Center</span></font></div>
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<blockquote type="cite">
<div>On Jul 21, 2023, at 8:08 AM, Takanori Nakane <tnakane.protein@OSAKA-U.AC.JP> wrote:</div>
<br class="Apple-interchange-newline">
<div><span style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;">Hi,</span><br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<span style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;">>
Running 'strings xxx.eer | less | grep sensor' actually contains the</span><br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<span style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;">>
field below:</span><br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<span style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;">></span><br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<span style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;">>
item name="sensorPixelSize.width" unit="m">8.85268664e-11</span><br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<span style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;">></span><br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<span style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;">>
which seems to display the correct pixel size for the acquisition. I</span><br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<span style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;">Great!
My files contained 0.000, perhaps because they were from</span><br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<span style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;">a
test version of the detector software.</span><br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<span style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;">>
et = ET.XML(f.eer_metadata)</span><br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<span style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;">This
is also great. I didn't know the tifffile package understands</span><br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<span style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;">non-standard
TIFF tags.</span><br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<span style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;">Best
regards,</span><br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<span style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;">Takanori
Nakane</span><br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<span style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none; float: none; display: inline !important;">On
2023/07/21 22:03, Ioannis Skalidis wrote:</span><br style="caret-color: rgb(0, 0, 0); font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
<blockquote type="cite" style="font-family: Courier; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: 400; letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; text-decoration: none;">
Thanks Takanori!<br>
Running 'strings xxx.eer | less | grep sensor' actually contains the field below:<br>
item name="sensorPixelSize.width" unit="m">8.85268664e-11<br>
which seems to display the correct pixel size for the acquisition. I cross-validated it with data from multiple acquisitions and it always changes accordingly.<br>
On 21.07.23 14:54, Takanori Nakane wrote:<br>
<blockquote type="cite">Hi,<br>
<br>
EER files contain some metadata in TFS-specific<br>
extended TIFF tags (e.g. IFD 65001).<br>
You have to write a script to read it but a dirty way is to just run<br>
<br>
strings XXX.eer | less<br>
<br>
and go to the bottom.<br>
<br>
There is a "sensorPixelSize.height" field.<br>
But I guess this is a physical pixel size of the detector<br>
independent of the magnification.<br>
I don't know if EER contains the pixel size at the sample.<br>
<br>
Best regards,<br>
<br>
Takanori Nakane<br>
<br>
On 2023/07/21 21:46, Ioannis Skalidis wrote:<br>
<blockquote type="cite">Dear all,<br>
<br>
I was looking for the raw pixel size of some acquired data and realized that when I use the 'header' command from the 3dmod package with the -eer modifier to read the header of an .eer file, it always returns a pixel spacing of 1 Å. Of course, I can read the
header of the corresponding .mrc files that are generated, but I was thinking if there is a way in unix/macos environments to read the .eer metadata directly. Does anybody have a way to do this?<br>
<br>
Thanks,<br>
<br>
Ioannis.<br>
<br>
</blockquote>
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