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Docker images failes with sam ls #594

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samhodge opened this issue Dec 22, 2018 · 0 comments
Open

Docker images failes with sam ls #594

samhodge opened this issue Dec 22, 2018 · 0 comments

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@samhodge
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using the docker image I get the following error message.

root@86d19034e85a:~# sam ls /mnt/testy/cat/
Traceback (most recent call last):
  File "/usr/local/bin/sam", line 101, in <module>
    tool.run(parser)
  File "/usr/local/bin/python/sam/sam_ls.py", line 321, in run
    self.printItems(items, args, detectionMethod, filters)
  File "/usr/local/bin/python/sam/sam_ls.py", line 222, in printItems
    self.printItem(item, args, level)
  File "/usr/local/bin/python/sam/sam_ls.py", line 157, in printItem
    filename = samUtils.getSequenceNameWithFormatting(item.getSequence(), args.format)
  File "/usr/local/bin/python/sam/common/samUtils.py", line 225, in getSequenceNameWithFormatting
    sequenceName += '#' * sequence.getPadding()
AttributeError: 'Sequence' object has no attribute 'getPadding'
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