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https://issues.apache.org/jira/browse/BEAM-2774?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=16271674#comment-16271674
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ASF GitHub Bot commented on BEAM-2774:
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chamikaramj commented on a change in pull request #4157: [BEAM-2774] Added
loose failure mode to allow individual VCF record reads to fail
URL: https://github.com/apache/beam/pull/4157#discussion_r153935838
##########
File path: sdks/python/apache_beam/io/vcfio.py
##########
@@ -427,10 +452,17 @@ def __init__(
underlying file_path's extension will be used to detect the
compression.
validate (bool): flag to verify that the files exist during the pipeline
creation time.
+ allow_malformed_records (bool): Determines if failed VCF
Review comment:
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> Add I/O source for VCF files (python)
> -------------------------------------
>
> Key: BEAM-2774
> URL: https://issues.apache.org/jira/browse/BEAM-2774
> Project: Beam
> Issue Type: New Feature
> Components: sdk-py-core
> Reporter: Asha Rostamianfar
> Assignee: Miles Saul
> Original Estimate: 336h
> Remaining Estimate: 336h
>
> A new I/O source for reading (and eventually writing) VCF files [1] for
> Python. The design doc is available at
> https://docs.google.com/document/d/1jsdxOPALYYlhnww2NLURS8NKXaFyRSJrcGbEDpY9Lkw/edit
> [1] http://samtools.github.io/hts-specs/VCFv4.3.pdf
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