Sentence examples for file parsing from inspiring English sources
Pybel [25, 26], a Python wrapper of the OpenBabel toolkit, was used in backend for molecular file parsing and converting.
The program only supports a single file format (SDF), using its internal file parsing routine, hence does not introduce dependencies on other libraries.
The sdfStructureTagger command line program is implemented in Java and uses the OEChem API for SD file parsing and substructure matching.
After turning off the reverse-complement search and modifying the sequence file parsing routine, Strand was able to train and classify against malware data with no other changes.
The data transformations and file parsing needed to run our gene birth dating pipeline were performed using perl (http://www.perl.org).
Because Gapcloser did not recognize the Hiseq2000 file parsing of the MP dataset, only the PE data was used.
When run through the Perl validator script (validtma.pl), Example 4 produces the following results, consisting of a list of the used tags, a statement that the XML file parsed as a valid TMA file, and an authentication string for the file.
After that the XML file is parsed and the result is added to the Vietnamese WordNet.
BLASTN output file was parsed to find all instances of scaffold overlap >1,000 bp in length with >90%ID between scaffolds from different metagenomes.
Each SDF file is parsed (Fig. 3b) using some functionality of Open Babel into a graph-based representation of the corresponding rigids and linkers (Fig. 3c).
