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Annotating a group using the webeditor creates HELM the webeditor won't accept #199

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ClairePA opened this issue May 3, 2018 · 1 comment
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@ClairePA
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ClairePA commented May 3, 2018

Steps to reproduce:

I draw the following molecule
image
HELM generated is correct PEPTIDE1{A.A.A.C.C.D.L.L.L.V.V.V.C.D.D}$$$$V2.0
I create a group and annotate it.
image
HELM generated looks fine. PEPTIDE1{A.A.A.C}|PEPTIDE2{L.V.V.V.C.D.D}|PEPTIDE3{C.D.L.L}"Test annotation"$PEPTIDE1,PEPTIDE3,4:R2-1:R1|PEPTIDE3,PEPTIDE2,4:R2-1:R1$$$V2.0

  • I clear the canvas contents
  • paste the generated HELM from above PEPTIDE1{A.A.A.C}|PEPTIDE2{L.V.V.V.C.D.D}|PEPTIDE3{C.D.L.L}"Test annotation"$PEPTIDE1,PEPTIDE3,4:R2-1:R1|PEPTIDE3,PEPTIDE2,4:R2-1:R1$$$V2.0 into the HELM box.
  • click apply
  • nothing happens
  • I move the bar to the resize the canvas and the following structure appears.

image

  • The fragments are correct and the annotations are retained, but they are not connected.
  • I click on the sequence tab and then back to the HELM tab and the HELM changes to PEPTIDE1{A.A.A.C}|PEPTIDE2{L.V.V.V.C.D.D}|PEPTIDE3{C.D.L.L}"Test annotation"$$$$V2.0 which reflects the canvas view i.e. is a set of 3 disconnected fragments.
@ClairePA
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ClairePA commented Aug 7, 2018

Retested. I now get the error
image

when trying to apply the HELM string

PEPTIDE1{A.A.A.C}|PEPTIDE2{L.V.V.V.C.D.D}|PEPTIDE3{C.D.L.L}"Test Annotation"$PEPTIDE1,PEPTIDE3,4:R2-1:R1|PEPTIDE3,PEPTIDE2,4:R2-1:R1$$$V2.0
despite this being generated by the webeditor itself.

@ClairePA ClairePA changed the title Odd things happen with annotated groups Annotating a group using the webeditor creates HELM the webeditor won't accept Sep 25, 2018
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