Electron-flow arrows and shortcut groups in images

User 870ab5b546

17-11-2004 13:41:10

If I make an image from this Marvin 3.5.0 file:

Code:

<?xml version="1.0"?>

<MDocument>

<MChemicalStruct>

<molecule molID="m1">

<atomArray

atomID="a1 a2 a3 a4 a5 a6 a7 a8 a9"

elementType="C C C C C R R Sn R"

radical="0 0 0 0 0 0 0 monovalent 0"

sgroupRef="0 0 0 0 0 sg1 sg2 0 sg3"

x2="-5.949999809265137 -7.195866138282165 -6.720003720894942 -5.1799958976353295 -4.7041334802481085 -2.450000047683716 -0.9100000476837158 -2.450000047683716 -2.0514187182258334"

y2="2.4766588817077935 1.5714422831957933 0.10689484327590204 0.10689484327590204 1.5714422831957933 0.49000004768371586 -1.0499999523162842 -1.0499999523162842 -2.5375257248014496"

/>

<bondArray>

<bond atomRefs2="a1 a2" order="1" />

<bond atomRefs2="a1 a5" order="1" />

<bond atomRefs2="a2 a3" order="1" />

<bond atomRefs2="a3 a4" order="2" />

<bond atomRefs2="a4 a5" order="1" />

<bond atomRefs2="a8 a6" order="1" />

<bond atomRefs2="a8 a7" order="1" />

<bond atomRefs2="a8 a9" order="1" />

</bondArray>

<molecule id="sg1" role="SuperatomSgroup" title="Bu" molID="m2">

<atomArray

atomID="a10 a11 a12 a13"

elementType="C C C C"

attachmentPoint="1 0 0 0"

x2="-2.0005186827420536 -0.6668395609140179 0.666839560914017 2.0005186827420536"

y2="-0.3849999999999996 0.3850000000000002 -0.3850000000000005 0.3849999999999995"

/>

<bondArray>

<bond atomRefs2="a10 a11" order="1" />

<bond atomRefs2="a11 a12" order="1" />

<bond atomRefs2="a12 a13" order="1" />

</bondArray>

</molecule>

<molecule id="sg2" role="SuperatomSgroup" title="Bu" molID="m3">

<atomArray

atomID="a14 a15 a16 a17"

elementType="C C C C"

attachmentPoint="1 0 0 0"

x2="-2.0005186827420536 -0.6668395609140179 0.666839560914017 2.0005186827420536"

y2="-0.3849999999999996 0.3850000000000002 -0.3850000000000005 0.3849999999999995"

/>

<bondArray>

<bond atomRefs2="a14 a15" order="1" />

<bond atomRefs2="a15 a16" order="1" />

<bond atomRefs2="a16 a17" order="1" />

</bondArray>

</molecule>

<molecule id="sg3" role="SuperatomSgroup" title="Bu" molID="m4">

<atomArray

atomID="a18 a19 a20 a21"

elementType="C C C C"

attachmentPoint="1 0 0 0"

x2="-2.0005186827420536 -0.6668395609140179 0.666839560914017 2.0005186827420536"

y2="-0.3849999999999996 0.3850000000000002 -0.3850000000000005 0.3849999999999995"

/>

<bondArray>

<bond atomRefs2="a18 a19" order="1" />

<bond atomRefs2="a19 a20" order="1" />

<bond atomRefs2="a20 a21" order="1" />

</bondArray>

</molecule>

</molecule>

</MChemicalStruct>

<MEFlow arcAngle="150.0" headSkip="0.15" headFlags="2" headLength="0.6"

headWidth="0.5" tailSkip="0.25">

<MAtomSetPoint atomRefs="m1.a8" />

<MAtomSetPoint atomRefs="m1.a8 m1.a4" />

</MEFlow>

<MEFlow arcAngle="-150.0" headSkip="0.15" headFlags="2" headLength="0.6"

headWidth="0.5" tailSkip="0.15">

<MAtomSetPoint atomRefs="m1.a3 m1.a4" />

<MAtomSetPoint atomRefs="m1.a8 m1.a4" />

</MEFlow>

<MEFlow arcAngle="248.39738999999997" headSkip="0.25" headFlags="2"

headLength="0.6" headWidth="0.5" tailSkip="0.15">

<MAtomSetPoint atomRefs="m1.a3 m1.a4" />

<MAtomSetPoint atomRefs="m1.a3" />

</MEFlow>

</MDocument>

the electron-flow arrows don't show up (see image 1). If I replace the Bu shortcut groups with Cl groups, as in this file:

Code:

<?xml version="1.0"?>

<MDocument>

<MChemicalStruct>

<molecule molID="m1">

<atomArray

atomID="a1 a2 a3 a4 a5 a6 a7 a8 a9"

elementType="C C C C C Sn Cl Cl Cl"

radical="0 0 0 0 0 monovalent 0 0 0"

x2="-5.949999809265137 -7.195866138282165 -6.720003720894942 -5.1799958976353295 -4.7041334802481085 -2.450000047683716 -2.450000047683716 -0.9100000476837158 -2.0514187182258334"

y2="2.4766588817077935 1.5714422831957933 0.10689484327590204 0.10689484327590204 1.5714422831957933 -1.0499999523162842 0.49000004768371586 -1.0499999523162842 -2.537525724801449"

/>

<bondArray>

<bond atomRefs2="a1 a2" order="1" />

<bond atomRefs2="a1 a5" order="1" />

<bond atomRefs2="a2 a3" order="1" />

<bond atomRefs2="a3 a4" order="2" />

<bond atomRefs2="a4 a5" order="1" />

<bond atomRefs2="a6 a7" order="1" />

<bond atomRefs2="a6 a8" order="1" />

<bond atomRefs2="a6 a9" order="1" />

</bondArray>

</molecule>

</MChemicalStruct>

<MEFlow arcAngle="150.0" headSkip="0.15" headFlags="2" headLength="0.6"

headWidth="0.5" tailSkip="0.25">

<MAtomSetPoint atomRefs="m1.a6" />

<MAtomSetPoint atomRefs="m1.a6 m1.a4" />

</MEFlow>

<MEFlow arcAngle="-150.0" headSkip="0.15" headFlags="2" headLength="0.6"

headWidth="0.5" tailSkip="0.15">

<MAtomSetPoint atomRefs="m1.a3 m1.a4" />

<MAtomSetPoint atomRefs="m1.a6 m1.a4" />

</MEFlow>

<MEFlow arcAngle="248.39738999999997" headSkip="0.25" headFlags="2"

headLength="0.6" headWidth="0.5" tailSkip="0.15">

<MAtomSetPoint atomRefs="m1.a3 m1.a4" />

<MAtomSetPoint atomRefs="m1.a3" />

</MEFlow>

</MDocument>

the electron-flow arrows do show up (see image 2).