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<div>It seems I am looking for the the compute_box option in polder maps. </div>
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<div>Ben </div>
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<div style="font-size:85%; color:#575757">Sent from my Android</div>
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<div>-------- Original message --------</div>
<div>From: "Flath, Ben" <bef206@mail.usask.ca> </div>
<div>Date: 2018-03-09 11:15 AM (GMT-06:00) </div>
<div>To: Pavel Afonine <pafonine@lbl.gov>, "Flath, Ben" <bef206@mail.usask.ca>, phenixbb@phenix-online.org
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<div>Subject: Re: [phenixbb] View Solvent Mask </div>
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<div>Now the important question </div>
<div>How can I modify the mask so it doesn't enter pockets within my model? Add HOH with occupancy set to zero and ignore_zero_occupancy_atoms=False? </div>
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<div>Or is running polder maps more effective? </div>
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<div>Thanks again </div>
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<div>Ben </div>
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<div id="composer_signature">
<div style="font-size:85%; color:#575757">Sent from my Android</div>
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<div>-------- Original message --------</div>
<div>From: Pavel Afonine <pafonine@lbl.gov> </div>
<div>Date: 2018-03-09 10:50 AM (GMT-06:00) </div>
<div>To: "Flath, Ben" <bef206@mail.usask.ca>, phenixbb@phenix-online.org </div>
<div>Subject: Re: [phenixbb] View Solvent Mask </div>
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<div>Hi Ben,<br>
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<div class="WordSection1"><span lang="EN-CA">I was watching the YouTube tutorial on Polder Maps and noticed that the bulk solvent mask was visualized in coot. How can I visualize my bulk solvent mask?</span><br>
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phenix.mask model.pdb<br>
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will calculate the mask.<br>
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Pavel<br>
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