<div dir="ltr"><div style>I tried to read an SDF file directly downloaded from pubchem into Chimera. However, I ran into the following problem (link to example file used, and reply log below). Is this expected behaviour, or a bug?</div>
<div style><br></div><div style>Additionally I tried to import the pubchem CID 71739 (same compound) from the fetch structure by ID tab, and got the error message:</div><div style>Unexpected end of file (parser state: counts) in MOL/SDF file 'FILEPATH HERE!'</div>
<div style><br></div><div style>Many thanks in advance,</div><div style><br></div><div style>Jon</div><div><br></div><a href="http://pubchem.ncbi.nlm.nih.gov/vw3d/vw3d.cgi?cmd=crtvw&reqid=238538977071577164" target="_blank" style="font-family:arial,sans-serif;font-size:13px">http://pubchem.ncbi.nlm.nih.gov/vw3d/vw3d.cgi?cmd=crtvw&reqid=238538977071577164</a><br style="font-family:arial,sans-serif;font-size:13px">
<br style="font-family:arial,sans-serif;font-size:13px"><span style="font-family:arial,sans-serif;font-size:13px">You are now running Chimera version 1.8 (build 38642).</span><br style="font-family:arial,sans-serif;font-size:13px">
<span style="font-family:arial,sans-serif;font-size:13px">Your previous version was 1.5 (build 32133).</span><br style="font-family:arial,sans-serif;font-size:13px"><span style="font-family:arial,sans-serif;font-size:13px">Check the release notes for new features and other info.</span><br style="font-family:arial,sans-serif;font-size:13px">
<span style="font-family:arial,sans-serif;font-size:13px">(To access the release notes, use the Help menu to bring up the User's Guide.</span><br style="font-family:arial,sans-serif;font-size:13px"><span style="font-family:arial,sans-serif;font-size:13px">Then click the 'Documentation index' link and you will then see a link</span><br style="font-family:arial,sans-serif;font-size:13px">
<span style="font-family:arial,sans-serif;font-size:13px">for the release notes.)</span><br style="font-family:arial,sans-serif;font-size:13px"><span style="font-family:arial,sans-serif;font-size:13px">Error while processing CID_71739_1183b00000003_conf.</span><span style="font-family:arial,sans-serif;font-size:13px">sdf:</span><br style="font-family:arial,sans-serif;font-size:13px">
<span style="font-family:arial,sans-serif;font-size:13px">Non-numeric charge (1 -0.36) in PUBCHEM_MMFF94_PARTIAL_CHARGES data</span><br style="font-family:arial,sans-serif;font-size:13px"><br style="font-family:arial,sans-serif;font-size:13px">
<span style="font-family:arial,sans-serif;font-size:13px">Error reading CID_71739_1183b00000003_conf.</span><span style="font-family:arial,sans-serif;font-size:13px">sdf:</span><br style="font-family:arial,sans-serif;font-size:13px">
<span style="font-family:arial,sans-serif;font-size:13px">Non-numeric charge (1 -0.36) in PUBCHEM_MMFF94_PARTIAL_CHARGES data</span><br style="font-family:arial,sans-serif;font-size:13px"><br style="font-family:arial,sans-serif;font-size:13px">
<span style="font-family:arial,sans-serif;font-size:13px">Error reading CID_3672_e5800000001_conf.sdf:</span><br style="font-family:arial,sans-serif;font-size:13px"><span style="font-family:arial,sans-serif;font-size:13px">Non-numeric charge (1 -0.65) in PUBCHEM_MMFF94_PARTIAL_CHARGES data</span><br style="font-family:arial,sans-serif;font-size:13px">
<br style="font-family:arial,sans-serif;font-size:13px"><span style="font-family:arial,sans-serif;font-size:13px">Error reading CID_71739_1183b00000003_conf.</span><span style="font-family:arial,sans-serif;font-size:13px">sdf:</span><br style="font-family:arial,sans-serif;font-size:13px">
<span style="font-family:arial,sans-serif;font-size:13px">Non-numeric charge (1 -0.36) in PUBCHEM_MMFF94_PARTIAL_CHARGES data</span><br></div>