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moved bdgenomics.adam package to bdgenomics-adam #1705

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moved bdgenomics.adam package to bdgenomics-adam #1705

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2 changes: 1 addition & 1 deletion adam-python/Makefile
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Expand Up @@ -32,7 +32,7 @@ The 'clean' target undoes the effect of 'develop'.

The 'test' target runs ADAM's unit tests. Set the 'tests' variable to run a particular test, e.g.

make test tests=src/adam/test/sort/sortTest.py::SortTest::testSort
make test tests=src/bdgenomics_adam/test/sort/sortTest.py::SortTest::testSort

The 'pypi' target publishes the current commit of ADAM to PyPI after enforcing that the working
copy and the index are clean, and tagging it as an unstable .dev build.
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2 changes: 1 addition & 1 deletion adam-python/setup.py
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Expand Up @@ -20,7 +20,7 @@
from version import version as adam_version

setup(
name='bdgenomics.adam',
name='bdgenomics_adam',
version=adam_version,
description='A fast, scalable genome analysis system',
author='Frank Austin Nothaft',
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0 adam-python/src/bdgenomics/__init__.py → adam-python/src/__init__.py
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0 adam-python/src/bdgenomics/adam/.gitignore → adam-python/src/bdgenomics_adam/.gitignore
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0 adam-python/src/bdgenomics/adam/__init__.py → adam-python/src/bdgenomics_adam/__init__.py
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2 changes: 1 addition & 1 deletion ...python/src/bdgenomics/adam/adamContext.py → ...python/src/bdgenomics_adam/adamContext.py
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Expand Up @@ -16,7 +16,7 @@
# limitations under the License.
#

from bdgenomics.adam.rdd import AlignmentRecordRDD, \
from bdgenomics_adam.rdd import AlignmentRecordRDD, \
CoverageRDD, \
FeatureRDD, \
FragmentRDD, \
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2 changes: 1 addition & 1 deletion adam-python/src/bdgenomics/adam/rdd.py → adam-python/src/bdgenomics_adam/rdd.py
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Expand Up @@ -21,7 +21,7 @@
from pyspark.rdd import RDD
from pyspark.sql import DataFrame, SQLContext

from bdgenomics.adam.stringency import LENIENT, _toJava
from bdgenomics_adam.stringency import LENIENT, _toJava

_log = logging.getLogger(__name__)

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0 ...-python/src/bdgenomics/adam/stringency.py → ...-python/src/bdgenomics_adam/stringency.py
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0 ...thon/src/bdgenomics/adam/test/__init__.py → ...thon/src/bdgenomics_adam/test/__init__.py
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4 changes: 2 additions & 2 deletions .../bdgenomics/adam/test/adamContext_test.py → .../bdgenomics_adam/test/adamContext_test.py
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Expand Up @@ -17,8 +17,8 @@
#


from bdgenomics.adam.adamContext import ADAMContext
from bdgenomics.adam.test import SparkTestCase
from bdgenomics_adam.adamContext import ADAMContext
from bdgenomics_adam.test import SparkTestCase


class ADAMContextTest(SparkTestCase):
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6 changes: 3 additions & 3 deletions ...mics/adam/test/alignmentRecordRdd_test.py → ...mics_adam/test/alignmentRecordRdd_test.py
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Expand Up @@ -17,9 +17,9 @@
#


from bdgenomics.adam.adamContext import ADAMContext
from bdgenomics.adam.rdd import AlignmentRecordRDD, CoverageRDD
from bdgenomics.adam.test import SparkTestCase
from bdgenomics_adam.adamContext import ADAMContext
from bdgenomics_adam.rdd import AlignmentRecordRDD, CoverageRDD
from bdgenomics_adam.test import SparkTestCase

from pyspark.sql.types import DoubleType

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4 changes: 2 additions & 2 deletions ...c/bdgenomics/adam/test/featureRdd_test.py → ...c/bdgenomics_adam/test/featureRdd_test.py
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Expand Up @@ -17,8 +17,8 @@
#


from bdgenomics.adam.adamContext import ADAMContext
from bdgenomics.adam.test import SparkTestCase
from bdgenomics_adam.adamContext import ADAMContext
from bdgenomics_adam.test import SparkTestCase


class FeatureRDDTest(SparkTestCase):
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4 changes: 2 additions & 2 deletions .../bdgenomics/adam/test/genotypeRdd_test.py → .../bdgenomics_adam/test/genotypeRdd_test.py
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Expand Up @@ -17,8 +17,8 @@
#


from bdgenomics.adam.adamContext import ADAMContext
from bdgenomics.adam.test import SparkTestCase
from bdgenomics_adam.adamContext import ADAMContext
from bdgenomics_adam.test import SparkTestCase


class GenotypeRDDTest(SparkTestCase):
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4 changes: 2 additions & 2 deletions ...c/bdgenomics/adam/test/variantRdd_test.py → ...c/bdgenomics_adam/test/variantRdd_test.py
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Expand Up @@ -17,8 +17,8 @@
#


from bdgenomics.adam.adamContext import ADAMContext
from bdgenomics.adam.test import SparkTestCase
from bdgenomics_adam.adamContext import ADAMContext
from bdgenomics_adam.test import SparkTestCase


class VariantRDDTest(SparkTestCase):
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