Example of downloading a list of PDB entries from RCSB
In [9]:
from pyspark import SparkConf, SparkContext
from mmtfPyspark.io import mmtfReader
from mmtfPyspark.structureViewer import view_structure
In [10]:
conf = SparkConf().setMaster("local[*]") \
.setAppName("DownloadMMTFFiles")
sc = SparkContext(conf = conf)
In [11]:
pdbIds = ['1AQ1','1B38','1B39','1BUH']
pdb = mmtfReader.download_mmtf_files(pdbIds, sc)
In [12]:
count = pdb.count()
print(f'number of entries downloaded : {count}')
number of entries downloaded : 4
In [13]:
structures = pdb.keys().collect()
view_structure(structures, style = 'line')
Out[13]:
<function mmtfPyspark.structureViewer.view_structure.<locals>.view3d>
In [14]:
sc.stop()