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glycoinfo / GlycanBuilder2

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GlycanBuilder2

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Standalone executable GlycanBuilder2

Requirement

Release node

Please see about details.

Compile

Clone this repository in the local repository.

git clone https://github.com/glycoinfo/GlycanBuilder2.git

Move to the cloned local repository and compile the source files

cd ~/Directory_of_local_repository/GlycanBuilder2
mvn clean compile

If a certificate error such as "PKIX path validation failed" occurred during the compilation process, please you try again with the below command.

mvn clean compile -X -Dmaven.wagon.http.ssl.insecure=true -Dmaven.wagon.http.ssl.allowall=true -Dmaven.wagon.http.ssl.ignore.validity.dates=true

JAR file

Runable JAR (Java Archive) file is generate the below command.

mvn clean -P make-fat-jar package

When compilation in finished, jar file is created in the target folder.

[INFO] Building jar: /../../Directory_of_local_repository/GlycanBuilder2/target/glycanbuilder2-jar-with-dependencies.jar

Import WURCS string

Imgur

  1. Click Add structure from string (Red marked).
  2. Paste WURCS string into the text area, and select WURCS2 in the input sequence format (Red marked).
  3. When click import button, represent glycan image on the canvas.

Export WURCS string

Import

  1. Drag and select a glycan image on the canvas.
  2. Click Get string from structure (Red marked).
  3. Select WURCS2 in the String encoded.
  4. WURCS2 string is output.

Export images

Image

  1. Drag and select a glycan image on the canvas.
  2. Click Export to graphical formats on the File tab and select the image format.
  3. Select a directory to save the image.

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