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<div class="">I have repeatedly tried to install Rosetta for use in Phenix with zero success.</div>
<div class=""><br class="">
</div>
<div class="">System:<span class="Apple-tab-span" style="white-space:pre"> </span>
macOS 10.13.6</div>
<div class="">Phenix version:<span class="Apple-tab-span" style="white-space:pre">
</span>phenix-1.14rc1-3177</div>
<div class="">Rosetta version:<span class="Apple-tab-span" style="white-space:pre">
</span>3.9 (rosetta_src_2018.09.60072_bundle)</div>
<div class=""><br class="">
</div>
<div class="">Relevant environmental variables:</div>
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</div>
<div class=""><font face="Menlo" class=""><b class="">ROSETTA3_DB=/usr/local/rosetta_src_2018.09.60072_bundle/main/database<br class="">
ROSETTA_TOOLS=/usr/local/rosetta_src_2018.09.60072_bundle/tools<br class="">
ROSETTA3=/usr/local/rosetta_src_2018.09.60072_bundle/main/source<br class="">
PHENIX=/Applications/phenix-1.14rc1-3177<br class="">
PHENIX_VERSION=1.14rc1-3177<br class="">
PHENIX_ROSETTA_PATH=/usr/local/rosetta_src_2018.09.60072_bundle</b><br class="">
</font><br class="">
<pre class="literal-block"><b class="">rosetta.build_phenix_interface</b> <font face="Helvetica" class="">—seemed</font><span style="font-family: Helvetica;" class="">—</span><font face="Helvetica" class=""> to work OK.</font></pre>
<pre class="literal-block"><font face="Helvetica" class="">However...</font></pre>
<b style="font-family: Menlo;" class="">rosetta.run_tests</b> fails with</div>
<div class=""><font face="Menlo" class=""><br class="">
</font></div>
<div class=""><font face="Menlo" class="">DEBUG dumping error message<br class="">
ERROR: Rosetta exited with status 1<br class="">
stderr output:<br class="">
BACKTRACE:<br class="">
0 &nbsp; libcore.3.dylib &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; &nbsp; 0x0000000114b0e4e6 print_backtrace(char const*) &#43; 54<br class="">
</font><br class="">
</div>
<div class="">…40 lines of traceback crap…</div>
<div class=""><br class="">
</div>
<div class="">
<div style="margin: 0px; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(255, 255, 255);" class="">
<span style="font-variant-ligatures: no-common-ligatures" class="">Traceback (most recent call last):</span></div>
<div style="margin: 0px; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(255, 255, 255);" class="">
<span style="font-variant-ligatures: no-common-ligatures" class="">&nbsp; File &quot;/Applications/phenix-1.14rc1-3177/build/../modules/phenix/phenix/command_line/rosetta_refine.py&quot;, line 307, in &lt;module&gt;</span></div>
<div style="margin: 0px; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(255, 255, 255);" class="">
<span style="font-variant-ligatures: no-common-ligatures" class="">&nbsp; &nbsp; run(sys.argv[1:], create_dir=True)</span></div>
<div style="margin: 0px; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(255, 255, 255);" class="">
<span style="font-variant-ligatures: no-common-ligatures" class="">&nbsp; File &quot;/Applications/phenix-1.14rc1-3177/build/../modules/phenix/phenix/command_line/rosetta_refine.py&quot;, line 191, in run</span></div>
<div style="margin: 0px; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(255, 255, 255);" class="">
<span style="font-variant-ligatures: no-common-ligatures" class="">&nbsp; &nbsp; debug=params.output.debug)</span></div>
<div style="margin: 0px; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(255, 255, 255);" class="">
<span style="font-variant-ligatures: no-common-ligatures" class="">&nbsp; File &quot;/Applications/phenix-1.14rc1-3177/modules/phenix/phenix/rosetta/refine.py&quot;, line 313, in __init__</span></div>
<div style="margin: 0px; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(255, 255, 255);" class="">
<span style="font-variant-ligatures: no-common-ligatures" class="">&nbsp; &nbsp; self.run_jobs()</span></div>
<div style="margin: 0px; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(255, 255, 255);" class="">
<span style="font-variant-ligatures: no-common-ligatures" class="">&nbsp; File &quot;/Applications/phenix-1.14rc1-3177/modules/phenix/phenix/rosetta/refine.py&quot;, line 388, in run_jobs</span></div>
<div style="margin: 0px; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(255, 255, 255);" class="">
<span style="font-variant-ligatures: no-common-ligatures" class="">&nbsp; &nbsp; check_result(result)</span></div>
<div style="margin: 0px; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(255, 255, 255);" class="">
<span style="font-variant-ligatures: no-common-ligatures" class="">&nbsp; File &quot;/Applications/phenix-1.14rc1-3177/modules/phenix/phenix/rosetta/refine.py&quot;, line 379, in check_result</span></div>
<div style="margin: 0px; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(255, 255, 255);" class="">
<span style="font-variant-ligatures: no-common-ligatures" class="">&nbsp; &nbsp; raise RuntimeError(&quot;Aborted due to error in job %d.&quot; % result.job_id)</span></div>
<div style="margin: 0px; font-stretch: normal; font-size: 11px; line-height: normal; font-family: Menlo; background-color: rgb(255, 255, 255);" class="">
<span style="font-variant-ligatures: no-common-ligatures" class="">RuntimeError: Aborted due to error in job 1.</span></div>
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<div class=""><span style="font-variant-ligatures: no-common-ligatures" class=""><br class="">
</span></div>
<div class=""><br class="">
Any ideas?<br class="">
<div class=""><br class="webkit-block-placeholder">
</div>
<div class="">Aaron Oakley<br class="">
</div>
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