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Strange rendering of Functional Groups #35

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MikeWilliams-UK opened this issue Feb 11, 2020 · 3 comments
Closed

Strange rendering of Functional Groups #35

MikeWilliams-UK opened this issue Feb 11, 2020 · 3 comments
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Bug Something isn't working Fixed Fixed, but may not be released yet

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@MikeWilliams-UK
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MikeWilliams-UK commented Feb 11, 2020 •
edited

I tried to draw this
image
But I get this
image
A video has been made for your reference. https://youtu.be/jNpb6hgyZFI

<cml:cml xmlns:conventions="http://www.xml-cml.org/convention/" xmlns:cml="http://www.xml-cml.org/schema" xmlns:cmlDict="http://www.xml-cml.org/dictionary/cml/" xmlns:nameDict="http://www.xml-cml.org/dictionary/cml/name/" xmlns:c4w="http://www.chem4word.com/cml" conventions="convention:molecular">
    <cml:atomArray>
      <cml:atom id="a1" elementType="C" x2="482.6795" y2="395" />
      <cml:atom id="a2" elementType="C" x2="482.6795" y2="375" />
      <cml:atom id="a3" elementType="C" x2="500" y2="365" />
      <cml:atom id="a4" elementType="C" x2="517.3205" y2="375" />
      <cml:atom id="a5" elementType="C" x2="517.3205" y2="395" />
      <cml:atom id="a6" elementType="C" x2="500" y2="405" />
      <cml:atom id="a7" elementType="O" x2="500" y2="345" />
      <cml:atom id="a8" elementType="C" x2="527.3205" y2="357.6795" />
      <cml:atom id="a9" elementType="CO2H" x2="537.3205" y2="375" />
      <cml:atom id="a10" elementType="C" x2="577.3205" y2="375" />
      <cml:atom id="a11" elementType="C" x2="617.3205" y2="375" />
    </cml:atomArray>
    <cml:bondArray>
      <cml:bond id="b1" atomRefs2="a1 a2" order="S" />
      <cml:bond id="b2" atomRefs2="a2 a3" order="S" />
      <cml:bond id="b3" atomRefs2="a3 a4" order="S" />
      <cml:bond id="b4" atomRefs2="a4 a5" order="S" />
      <cml:bond id="b5" atomRefs2="a5 a6" order="S" />
      <cml:bond id="b6" atomRefs2="a6 a1" order="S" />
      <cml:bond id="b7" atomRefs2="a3 a7" order="D" />
      <cml:bond id="b8" atomRefs2="a4 a8" order="S" />
      <cml:bond id="b9" atomRefs2="a9 a4" order="S" />
      <cml:bond id="b10" atomRefs2="a9 a10" order="S" />
      <cml:bond id="b11" atomRefs2="a10 a11" order="S" />
    </cml:bondArray>
  </cml:molecule>
</cml:cml>

Originally posted by @tomyan112 in #33 (comment)
@MikeWilliams-UK
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@tomyan112 I have created a new issue as this has nothing to do with the terminal double bond placement

@MikeWilliams-UK MikeWilliams-UK mentioned this issue Feb 11, 2020
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@MikeWilliams-UK MikeWilliams-UK changed the title I tried to draw this Functional Group rendering when not at edge of structure Feb 11, 2020
@MikeWilliams-UK MikeWilliams-UK changed the title Functional Group rendering when not at edge of structure Strange rendering of Functional Group CO2H Feb 12, 2020
@MikeWilliams-UK MikeWilliams-UK added Bug Something isn't working Fixed Fixed, but may not be released yet labels Feb 12, 2020
@MikeWilliams-UK
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Copied from another issue #38

It does not connect with the carbon
image

See the CO₂H
image

@MikeWilliams-UK MikeWilliams-UK changed the title Strange rendering of Functional Group CO2H Strange rendering of Functional Groups Feb 18, 2020
MikeWilliams-UK added a commit that referenced this issue Mar 5, 2020
@MikeWilliams-UK @deadlyvices
Merged PR 334: Implement new settings and Fix flipping of functional …
ef92d2f 
…groups

Implement new settings and Fix flipping of functional groups

New Options
- ShowAtomsInColour
- ShowImplicitHydrogens
- ShowAllCarbonAtoms

#11
#17

Functional Group Issues
#35

**Please be sure to try both Test Harness and Add-In**

Related work items: #677, #678, #681
MikeWilliams-UK added a commit that referenced this issue Mar 5, 2020
@MikeWilliams-UK
Merged PR 338: V3.1.6 Beta 6
6d3f336 
* ACME displays warning circles when valence violations occur #31
* ACME keyboard focus now returns to the editor #30
* Add ACME Option to render in Monochrome #11
* Add ACME Option to show/hide Implicit Hydrogens #17
* Fix flipping of functional groups #35
* Fix crash when using Create PDF button on Adobe Acrobat Word Add-In #40
* Correct rendering of double bond of norbornene #34
* Correct rendering of terminal double bonds #25
* Silently handle COMException in OnDocumentBeforeSave #42

Related work items: #677, #678, #681, #690, #697, #698, #700, #701
@MikeWilliams-UK
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Fixed by beta-6

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@MikeWilliams-UK