Hi, <div>YES, we tested on most systems including Fedora. If you have the right compilers it's going to work. </div><div>Cheers,</div><div>Dominika<br><br>On Thursday, May 26, 2016, Sergey Ryazantsev <<a href="mailto:sryazant@ucla.edu">sryazant@ucla.edu</a>> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
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<font face="Arial"><font face="Arial">Hans, hello<br>
<font face="Arial">Is it possible to run your software under
RedHat flavor Linux? <br>
<font face="Arial">Sergey</font><br>
</font></font><br>
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<div>On 5/25/2016 9:50 PM, Hans Elmlund
wrote:<br>
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<div style="font-size:12.8px">Dear Structural Biologists:<br>
</div>
<div style="font-size:12.8px"><br>
</div>
<div style="font-size:12.8px">We announce the release of a new
version of our program package <b>SIMPLE (v2.1)</b> for
single-particle cryo-EM <i>ab initio</i> 3D reconstruction.</div>
<div style="font-size:12.8px"> </div>
<div style="font-size:12.8px">Please note that the webpage has
moved to <a href="http://www.simplecryoem.com/" target="_blank">www.simplecryoem.com</a>.</div>
<div style="font-size:12.8px"><br>
</div>
<div style="font-size:12.8px"><u>New features include:</u></div>
<div style="font-size:12.8px"><br>
</div>
<div style="font-size:12.8px"><b>* PRIME2D:</b> A Stochastic
Hill Climbing Approach for Simultaneous 2D Alignment and
Clustering of cryo-EM images (DOI: <a href="http://dx.doi.org/10.1016/j.str.2016.04.006" target="_blank">http://dx.doi.org/10.1016/j.str.2016.04.006</a>)
which</div>
<div style="font-size:12.8px"> (1) generates improved 2D class
averages from large single-particle cryo-EM datasets</div>
<div style="font-size:12.8px"> (2) can be used in conjunction
with PRIME3D to obtain a reliable 3D starting model in a rapid
and unbiased fashion</div>
<div style="font-size:12.8px"> (3) overcomes inherent
limitations in widely used clustering approaches</div>
<div style="font-size:12.8px"> (4) is many times faster than
other widely used approaches</div>
<div style="font-size:12.8px"><br>
</div>
<div style="font-size:12.8px"><b>* PRIME3D:</b> ~150-fold
speedup as compared to the previously released version. This
was accomplished using new theory for fast rotational matching
of polar Fourier transforms based on Hadamard products
calculated using a re-organised and highly parallelizable data
structure. The paper is not yet published, but we decided to
nevertheless release the code since we anticipate that the
massive speedup of PRIME3D will have major impacts for our
users. For example, less than 10,0000 particles downscaled to
around 100x100 pixels can feasibly be processed on a modern
laptop equipped with an Intel i5 or i7 processor. We executed
an <i>ab initio</i> 3D reconstruction run using PRIME3D on
half a million images downscaled to 64x64 pixels in less than
5 hours on a cluster with 224 CPU cores (Intel(R) Xeon(R) CPU
E5-2670 0 @ 2.60GHz).</div>
<div style="font-size:12.8px"><br>
</div>
<div style="font-size:12.8px"><b>* MRC file format support.</b> The
file handling classes are shared with the Frealix program for
helical reconstruction.</div>
<div style="font-size:12.8px"><br>
</div>
<div style="font-size:12.8px"><b>* Improved manuals</b> and
easier to use command line-based front-end.</div>
<div style="font-size:12.8px"><br>
</div>
<div style="font-size:12.8px"><b>* Extended automatic unit test
suite </b>(executed via the optional "make check").</div>
<div style="font-size:12.8px"><br>
</div>
<div style="font-size:12.8px"><u>Our next release (SIMPLE 3.0)
is planned for January 2017 and will include:</u></div>
<div style="font-size:12.8px"><br>
</div>
<div style="font-size:12.8px">* GPU accelerated motion
correction</div>
<div style="font-size:12.8px">* GPU accelerated PRIME2D/3D</div>
<div style="font-size:12.8px">* GPU accelerated multiparticle 3D
reconstruction</div>
<div style="font-size:12.8px"><br>
</div>
<div style="font-size:12.8px">We thank our beta testers for
their constructive feedback. If you need help installing
SIMPLE, optimising its execution for your computer
architecture or experience any problems or bugs please use the
contact form on the webpage (<a href="http://www.simplecryoem.com/" target="_blank">www.simplecryoem.com</a>)
to file a help ticket. We will endeavour to respond within two
days.</div>
<div style="font-size:12.8px"><br>
</div>
<div style="font-size:12.8px">Happy image processing!</div>
<div style="font-size:12.8px"><br>
</div>
<div style="font-size:12.8px"><b>The SIMPLE team:</b></div>
<div style="font-size:12.8px">Sarah N Le</div>
<div style="font-size:12.8px">Cyril F Reboul</div>
<div style="font-size:12.8px">Frederic Bonnet</div>
<div style="font-size:12.8px">Dominika & Hans Elmlund</div>
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<p><span style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:small;line-height:normal">-- </span><br style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:small;line-height:normal">
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<div dir="ltr"><font face="arial narrow,
sans-serif"><span style="font-size:12.8px"><b>HANS
ELMLUND PhD </b>
</span><br>
</font></div>
<div><font face="arial narrow,
sans-serif">Associate
Professor</font></div>
<div dir="ltr"><font face="arial narrow,
sans-serif"><br>
</font></div>
<div dir="ltr"><font face="arial narrow,
sans-serif"><b>ARC Centre
of Excellence for
Advanced Molecular
Imaging</b></font></div>
<div><font face="arial narrow,
sans-serif"><b>Dept. of
Biochemistry and
Molecular Biology</b></font></div>
<div dir="ltr"><font face="arial narrow,
sans-serif">Monash
University</font></div>
<div dir="ltr"><font face="arial narrow,
sans-serif">Room 228,
Level 2, Building 77,
Clayton Campus</font></div>
<div dir="ltr">
<div><font face="arial
narrow, sans-serif">23
Innovation Walk</font></div>
<div><font face="arial
narrow, sans-serif">Clayton
VIC 3800 </font></div>
<div dir="ltr"><font face="arial narrow,
sans-serif">Australia</font></div>
</div>
<div dir="ltr"><font face="arial narrow,
sans-serif"><br>
</font></div>
<div dir="ltr"><font face="arial narrow,
sans-serif">T: +61
399029310
</font></div>
<div dir="ltr"><font face="arial narrow,
sans-serif">M: +61
(0)45271213</font></div>
<div dir="ltr"><font face="arial narrow,
sans-serif">E: <a href="javascript:_e(%7B%7D,'cvml','hans.elmlund@monash.edu');" style="color:rgb(17,85,204)" target="_blank">hans.elmlund@monash.edu</a></font></div>
<div dir="ltr"><a href="http://simplecryoem.com/" style="font-size:12.8px" target="_blank">simplecryoem.com</a></div>
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<pre>_______________________________________________
3dem mailing list
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</pre>
</blockquote>
<br>
<pre cols="72">--
--------------------------------------------
Sergey Ryazantsev Ph.D.
Phone: 310-453-0748
E-mail: <a href="javascript:_e(%7B%7D,'cvml','sryazant@ucla.edu');" target="_blank">sryazant@ucla.edu</a></pre>
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</blockquote></div><br><br>-- <br><div dir="ltr"><div><div dir="ltr"><div><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><p style="font-size:12pt;margin-bottom:0px;margin-top:24px;line-height:24px;font-family:'times new roman',serif;color:rgb(96,102,109)"><span style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:small;line-height:normal">-- </span><br style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:small;line-height:normal"></p><div style="font-size:small"><div dir="ltr"><div dir="ltr"><div dir="ltr"><div dir="ltr"><font face="arial narrow, sans-serif"><span style="font-size:12.8px"><b>DOMINIKA ELMLUND PhD </b> </span><br></font></div><div><font face="arial narrow, sans-serif">Associate Professor</font></div><div dir="ltr"><font face="arial narrow, sans-serif"><br></font></div><div dir="ltr"><font face="arial narrow, sans-serif"><b>ARC Centre of Excellence for Advanced Molecular Imaging</b></font></div><div><font face="arial narrow, sans-serif"><b>Dept. of Biochemistry and Molecular Biology</b></font></div><div dir="ltr"><font face="arial narrow, sans-serif">Monash University</font></div><div dir="ltr"><font face="arial narrow, sans-serif">Room 223, Level 2, Building 77, Clayton Campus</font></div><div dir="ltr"><div><font face="arial narrow, sans-serif">23 Innovation Walk</font></div><div><font face="arial narrow, sans-serif">Clayton VIC 3800 </font></div><div dir="ltr"><font face="arial narrow, sans-serif">Australia</font></div></div><div dir="ltr"><font face="arial narrow, sans-serif"><br></font></div><div dir="ltr"><font face="arial narrow, sans-serif">T: +61 399050002 </font></div><div dir="ltr"><font face="arial narrow, sans-serif">M: +61 (0)450899171</font></div><div dir="ltr"><font face="arial narrow, sans-serif">E: <a href="mailto:dominika.elmlund@monash.edu" style="color:rgb(17,85,204)" target="_blank">dominika.elmlund@monash.edu</a></font></div><div dir="ltr"><a href="http://simplecryoem.com" style="font-size:12.8px" target="_blank">simplecryoem.com</a></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div></div><br>