<html><head><meta http-equiv="Content-Type" content="text/html charset=windows-1252"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">Omgiod thank you! I don’t know why it was returning an undefined error, which was the source of my confusion, but I’m glad it was such a simple fix!<div class=""><br class=""></div><div class="">Thank you so much!<br class=""><div class=""><br class=""><div class="">
<div style="color: rgb(0, 0, 0); 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; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); 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; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); 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; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); 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; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); 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; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); 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; word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div style="color: rgb(0, 0, 0); font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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;" class=""><div class="">Madison Fitzgerald</div><div class=""><br class=""></div><div class="">Astrophysics | Lyman Briggs College</div><div class="">Women’s & Gender Studies | College of Arts & Letters</div><div class="">LGBTQ and Sexuality Studies Specialization</div><div class=""><div class="">Women in Science, President</div><div class="">Undergraduate Teaching Assistant</div><div class="">Undergraduate Research Assistant</div><div class="">Department of Physics and Astronomy</div></div><div class="">Honors College</div><div class="">Michigan State University</div></div></div></div></div></div></div></div>
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<br class=""><div><blockquote type="cite" class=""><div class="">On Jul 30, 2015, at 11:51 AM, Kacper Kowalik <<a href="mailto:xarthisius.kk@gmail.com" class="">xarthisius.kk@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><span style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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; float: none; display: inline !important;" class="">On 07/30/2015 10:38 AM, Madison Fitzgerald wrote:</span><br style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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;" class=""><blockquote type="cite" style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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;" class="">Oh! Well, that certainly simplifies things! Thank you! And it does fix<br class="">my matplotlib error!<br class=""><br class="">However, I still am seeing an error when I try to run my script (which<br class="">was what happened to lead me down this insane road with updating yt and<br class="">breaking matplotlib at the beginning). I’m getting an “Operation not<br class="">defined” error, but when I create a scratch script to narrow down which<br class="">part of line 14 is actually the undefined operation, they all work<br class="">individually.<br class=""><br class="">Script: <a href="http://paste.yt-project.org/show/5761/" class="">http://paste.yt-project.org/show/5761/</a><br class="">Error: <a href="http://paste.yt-project.org/show/5760/" class="">http://paste.yt-project.org/show/5760/</a><br class=""><br class="">Any thoughts?<br class=""></blockquote><br style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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;" class=""><span style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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; float: none; display: inline !important;" class="">Hi Madison,</span><br style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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;" class=""><span style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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; float: none; display: inline !important;" class="">use np.abs or np.absolute instead of np.fabs for yt arrays.</span><br style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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;" class=""><span style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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; float: none; display: inline !important;" class="">Since you also know that all values are negative, I think it'd be faster</span><br style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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;" class=""><span style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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; float: none; display: inline !important;" class="">to just add '-' instead of abs.</span><br style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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;" class=""><span style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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; float: none; display: inline !important;" class="">Cheers,</span><br style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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;" class=""><span style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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; float: none; display: inline !important;" class="">Kacper</span><br style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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;" class=""><br style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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;" class=""><blockquote type="cite" style="font-family: Helvetica; font-size: 12px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: 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;" class="">Again, thank you, I really appreciate all of your help.<br class=""><br class="">Best,<br class="">Madison<br class=""><br class=""><br class=""><br class="">Madison Fitzgerald<br class=""><br class="">Astrophysics | Lyman Briggs College<br class="">Women’s & Gender Studies | College of Arts & Letters<br class="">LGBTQ and Sexuality Studies Specialization<br class="">Women in Science, President<br class="">Undergraduate Teaching Assistant<br class="">Undergraduate Research Assistant<br class="">Department of Physics and Astronomy<br class="">Honors College<br class="">Michigan State University<br class=""><br class=""><blockquote type="cite" class="">On Jul 30, 2015, at 11:18 AM, Nathan Goldbaum <<a href="mailto:nathan12343@gmail.com" class="">nathan12343@gmail.com</a><br class=""><<a href="mailto:nathan12343@gmail.com" class="">mailto:nathan12343@gmail.com</a>>> wrote:<br class=""><br class="">"yt update" won't work with the miniconda-based installation. Instead,<br class="">when we do a new release you'll be able to get the updated yt package<br class="">by doing "conda update yt".<br class=""><br class="">You don't need to run an activate script if you're using miniconda's<br class="">Python, just start Python, import yt, and load your data :)<br class=""><br class="">Nathan<br class=""><br class="">On Thursday, July 30, 2015, Madison Fitzgerald <<a href="mailto:fitzg152@msu.edu" class="">fitzg152@msu.edu</a><br class=""><<a href="mailto:fitzg152@msu.edu" class="">mailto:fitzg152@msu.edu</a>>> wrote:<br class=""><br class=""> I figured out that miniconda was having an issue with another<br class=""> version of python, installed when I took a python-based<br class=""> programming class, and I was able to redirect my path to point to<br class=""> miniconda’s version instead, which solved that problem. However, I<br class=""> think my problem now is figuring out how to activate yt with<br class=""> miniconda. By that, I mean, I receive this output after<br class=""> installation and trying to take the first step:<br class=""><br class=""> "Hermione:~ madisonfitzgerald$ yt update<br class=""><br class=""> yt module located at:<br class=""> /Users/madisonfitzgerald/miniconda/lib/python2.7/site-packages<br class=""><br class=""> YT site-packages not in path, so you must<br class=""> update this installation manually by committing and<br class=""> merging your modifications to the code before<br class=""> updating to the newest changeset.”<br class=""><br class=""><br class=""> And I’m not sure what they mean by this.<br class=""><br class=""> Thank you so much for you help and your patience.<br class=""><br class=""> Madison Fitzgerald<br class=""><br class=""> Astrophysics | Lyman Briggs College<br class=""> Women’s & Gender Studies | College of Arts & Letters<br class=""> LGBTQ and Sexuality Studies Specialization<br class=""> Women in Science, President<br class=""> Undergraduate Teaching Assistant<br class=""> Undergraduate Research Assistant<br class=""> Department of Physics and Astronomy<br class=""> Honors College<br class=""> Michigan State University<br class=""><br class=""><blockquote type="cite" class=""> On Jul 30, 2015, at 2:10 AM, Nathan Goldbaum<br class=""> <<a href="mailto:nathan12343@gmail.com" class="">nathan12343@gmail.com</a><br class=""> <javascript:_e(%7B%7D,'cvml','<a href="mailto:nathan12343@gmail.com" class="">nathan12343@gmail.com</a>');>> wrote:<br class=""><br class=""> Can you explain a little bit more what's going wrong with the<br class=""> miniconda-based installation?<br class=""><br class=""> Unfortunately none of us have been able to reproduce the issue<br class=""> you're having with the install script and since it has something<br class=""> to do with matplotlib, I don't think any of us would know<br class=""> off-hand how to fix it in-place.<br class=""><br class=""> Debugging issues like this over a mailing list is always<br class=""> potentially a frustrating experience, I'm sorry we haven't been<br class=""> able to come up with a suitable solution so far.<br class=""><br class=""> On Wednesday, July 29, 2015, Madison Fitzgerald <<a href="mailto:fitzg152@msu.edu" class="">fitzg152@msu.edu</a><br class=""> <javascript:_e(%7B%7D,'cvml','<a href="mailto:fitzg152@msu.edu" class="">fitzg152@msu.edu</a>');>> wrote:<br class=""><br class=""> Hi everyone,<br class=""><br class=""> Kacper: Sorry, my bad, but no, it didn’t work, unfortunately.<br class=""><br class=""> John and Nathan: Thank you, but I haven’t gotten anything to<br class=""> work, which is especially frustrating because I had a<br class=""> functioning yt just a few days ago. Installing yt with<br class=""> miniconda has only made yt less willing to function, not<br class=""> solve my matplotlib issue.<br class=""><br class=""> Truthfully, I’m really not sure where to go from here. Any<br class=""> thoughts?<br class=""><br class=""> Thank you,<br class=""> Madison<br class=""><br class=""><br class=""> Madison Fitzgerald<br class=""><br class=""> Astrophysics | Lyman Briggs College<br class=""> Women’s & Gender Studies | College of Arts & Letters<br class=""> LGBTQ and Sexuality Studies Specialization<br class=""> Women in Science, President<br class=""> Undergraduate Teaching Assistant<br class=""> Undergraduate Research Assistant<br class=""> Department of Physics and Astronomy<br class=""> Honors College<br class=""> Michigan State University<br class=""><br class=""><blockquote type="cite" class=""> On Jul 29, 2015, at 11:01 PM, John ZuHone<br class=""> <<a href="mailto:jzuhone@gmail.com" class="">jzuhone@gmail.com</a>> wrote:<br class=""><br class=""> A bit late, but I can confirm that I was able to install<br class=""> from the install script on Mac OS 10.10 without any issue.<br class=""><br class=""><blockquote type="cite" class=""> On Jul 29, 2015, at 7:06 PM, Kacper Kowalik<br class=""> <<a href="mailto:xarthisius.kk@gmail.com" class="">xarthisius.kk@gmail.com</a>> wrote:<br class=""><br class=""> Hi again,<br class=""> did setting backend to 'agg' also fail?<br class=""> Cheers,<br class=""> Kacper<br class=""><br class=""> On Jul 29, 2015 5:32 PM, "Nathan Goldbaum"<br class=""> <<a href="mailto:nathan12343@gmail.com" class="">nathan12343@gmail.com</a>> wrote:<br class=""><br class=""><br class=""><br class=""> On Wed, Jul 29, 2015 at 5:30 PM, Madison Fitzgerald<br class=""> <<a href="mailto:fitzg152@msu.edu" class="">fitzg152@msu.edu</a>> wrote:<br class=""><br class=""> Hi Nathan,<br class=""><br class=""> I’m still getting the same error when I uninstall<br class=""> and then reinstall matplotlib. How would I be able<br class=""> to use miniconda as a workaround?<br class=""><br class=""><br class=""> Following these instructions:<br class=""><br class=""> <a href="http://yt-project.org/docs/dev/installing.html#installing-yt-using-anaconda" class="">http://yt-project.org/docs/dev/installing.html#installing-yt-using-anaconda</a><br class=""><br class=""> By the way, did you completely erase the old yt<br class=""> installation before rerunning the install script? Not<br class=""> doing so might be the cause of your issue.<br class=""><br class=""><br class=""><br class=""> Thank you,<br class=""> Madison<br class=""><br class=""><br class=""> Madison Fitzgerald<br class=""><br class=""> Astrophysics | Lyman Briggs College<br class=""> Women’s & Gender Studies | College of Arts & Letters<br class=""> LGBTQ and Sexuality Studies Specialization<br class=""> Women in Science, President<br class=""> Undergraduate Teaching Assistant<br class=""> Undergraduate Research Assistant<br class=""> Department of Physics and Astronomy<br class=""> Honors College<br class=""> Michigan State University<br class=""><br class=""><blockquote type="cite" class=""> On Jul 29, 2015, at 5:30 PM, Nathan Goldbaum<br class=""> <<a href="mailto:nathan12343@gmail.com" class="">nathan12343@gmail.com</a>> wrote:<br class=""><br class=""><br class=""><br class=""> On Wed, Jul 29, 2015 at 4:19 PM, Madison<br class=""> Fitzgerald <<a href="mailto:fitzg152@msu.edu" class="">fitzg152@msu.edu</a>> wrote:<br class=""><br class=""> Hi everyone,<br class=""><br class=""> I’ve run into an error whenever I try to<br class=""> execute any yt command (see yt_run_error.txt,<br class=""> attached because I can’t use “yt pastebin”).<br class=""> I’ve tried following the steps on the help<br class=""> page, including re-installing yt, and I still<br class=""> get this same error. I just installed the<br class=""> latest stable yt version (I can’t execute the<br class=""> command to give you specific numbers) on Mac<br class=""> OS X 10.10.4.<br class=""><br class=""> Does anyone know where I should start to fix this?<br class=""><br class=""><br class=""> This is happening inside of matplotlib.<span class="Apple-converted-space"> </span><br class=""><br class=""> Can you try reinstalling the matplotlib that's in<br class=""> the yt environment? You should be able to do that<br class=""> with:<br class=""><br class=""> $ pip uninstall matplotlib<br class=""> $ pip install matplotlib<br class=""><br class=""> And see if that works?<br class=""><br class=""> Failing that, a workaround would be to use a<br class=""> miniconda-based install. <br class=""><br class=""> I'm currently running the install script on my mac<br class=""> laptop to see if I can reproduce your issue.<br class=""><br class=""> -Nathan<br class=""><br class=""><br class=""><br class=""> Thank you,<br class=""> Madison<br class=""><br class=""><br class=""> Madison Fitzgerald<br class=""><br class=""> Astrophysics | Lyman Briggs College<br class=""> Women’s & Gender Studies | College of Arts &<br class=""> Letters<br class=""> LGBTQ and Sexuality Studies Specialization<br class=""> Women in Science, President<br class=""> Undergraduate Teaching Assistant<br class=""> Undergraduate Research Assistant<br class=""> Department of Physics and Astronomy<br class=""> Honors College<br class=""> Michigan State University<br class=""><br class=""><br class=""><br class=""><br class=""><br class=""> _______________________________________________<br class=""> yt-users mailing list<br class=""> <a href="mailto:yt-users@lists.spacepope.org" class="">yt-users@lists.spacepope.org</a><br class=""> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a><br class=""><br class=""><br class=""> _______________________________________________<br class=""> yt-users mailing list<br class=""> <a href="mailto:yt-users@lists.spacepope.org" class="">yt-users@lists.spacepope.org</a><br class=""> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a><br class=""></blockquote><br class=""><br class=""> _______________________________________________<br class=""> yt-users mailing list<br class=""> <a href="mailto:yt-users@lists.spacepope.org" class="">yt-users@lists.spacepope.org</a><br class=""> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a><br class=""><br class=""><br class=""><br class=""> _______________________________________________<br class=""> yt-users mailing list<br class=""> <a href="mailto:yt-users@lists.spacepope.org" class="">yt-users@lists.spacepope.org</a><br class=""> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a><br class=""><br class=""> _______________________________________________<br class=""> yt-users mailing list<br class=""> <a href="mailto:yt-users@lists.spacepope.org" class="">yt-users@lists.spacepope.org</a><br class=""> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a><br class=""></blockquote><br class=""> _______________________________________________<br class=""> yt-users mailing list<br class=""> <a href="mailto:yt-users@lists.spacepope.org" class="">yt-users@lists.spacepope.org</a><br class=""> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a><br class=""></blockquote><br class=""> _______________________________________________<br class=""> yt-users mailing list<br class=""> <a href="mailto:yt-users@lists.spacepope.org" class="">yt-users@lists.spacepope.org</a><br class=""> <javascript:_e(%7B%7D,'cvml','<a href="mailto:yt-users@lists.spacepope.org" class="">yt-users@lists.spacepope.org</a>');><br class=""> <a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a><br class=""></blockquote><br class="">_______________________________________________<br class="">yt-users mailing list<br class=""><a href="mailto:yt-users@lists.spacepope.org" class="">yt-users@lists.spacepope.org</a><span class="Apple-converted-space"> </span><<a href="mailto:yt-users@lists.spacepope.org" class="">mailto:yt-users@lists.spacepope.org</a>><br class=""><a href="http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org" class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org</a><br class=""></blockquote><br class=""><br class=""><br class="">_______________________________________________<br class="">yt-users mailing list<br class=""><a href="mailto:yt-users@lists.spacepope.org" class="">yt-users@lists.spacepope.org</a><br class="">http://lists.spacepope.org/listinfo.cgi/yt-users-spacepope.org<br class=""><br class=""></blockquote><br style="font-family: Helvetica; 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