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molconvert csv to V3 sd file

Hello everyone, i have a little issue with molconverter, the task is to convert the csv file with smiles which contain stereochemistry to sdf:V3 file

I use cmd with c:\bin>molconvert sdf:V3 test2.csv -o test2.sdf and have an error on smile which contain stereochemistry, all others smiles are converted correctly.

Stereochemistry in smile are represented as, example: "|&1:11,16,r|"

I have an error "java.lang.ArrayIndexOutOfBoundsException: 10

 at com.chemaxon.marvin.io.formats.csv.CsvRecordReader.nextRecord(CsvRecordReader.java:110)

 at chemaxon.marvin.io.MRecordImporter.startReadingNext(MRecordImporter.java:1028)

 at chemaxon.marvin.io.MRecordImporter.readRecord(MRecordImporter.java:672)

 at chemaxon.marvin.io.MRecordImporter.readDoc0(MRecordImporter.java:479)

 at chemaxon.marvin.io.MRecordImporter.readDoc(MRecordImporter.java:429)

 at chemaxon.formats.MolImporter.readDoc(MolImporter.java:871)

 at chemaxon.formats.MolConverter.readDoc(MolConverter.java:1202)

 at chemaxon.formats.MolConverter.convert0(MolConverter.java:1029)

 at chemaxon.formats.MolConverter.convert(MolConverter.java:861)

 at chemaxon.formats.MolConverter.main(MolConverter.java:2132)"

 

Help please.

1 Comment

Problem solved through cxsmiles with tabulation, you can close the topic.

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