easylink 0.1.23__py3-none-any.whl → 0.1.24__py3-none-any.whl

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Files changed (9) hide show
  1. easylink/_version.py +1 -1
  2. easylink/cli.py +1 -0
  3. easylink/rule.py +2 -1
  4. {easylink-0.1.23.dist-info → easylink-0.1.24.dist-info}/METADATA +1 -1
  5. {easylink-0.1.23.dist-info → easylink-0.1.24.dist-info}/RECORD +9 -9
  6. {easylink-0.1.23.dist-info → easylink-0.1.24.dist-info}/WHEEL +0 -0
  7. {easylink-0.1.23.dist-info → easylink-0.1.24.dist-info}/entry_points.txt +0 -0
  8. {easylink-0.1.23.dist-info → easylink-0.1.24.dist-info}/licenses/LICENSE +0 -0
  9. {easylink-0.1.23.dist-info → easylink-0.1.24.dist-info}/top_level.txt +0 -0
easylink/_version.py CHANGED
@@ -1 +1 @@
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- __version__ = "0.1.23"
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+ __version__ = "0.1.24"
easylink/cli.py CHANGED
@@ -243,6 +243,7 @@ def generate_dag(
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  input_data=input_data,
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  computing_environment=None,
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  results_dir=results_dir,
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+ images_dir=None,
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  schema_name=schema,
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  )
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  logger.info("*** DAG saved to result directory ***")
easylink/rule.py CHANGED
@@ -14,6 +14,7 @@ dynamically as strings and appended to the Snakefile.
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  """
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  import os
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+ import shlex
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  from abc import ABC, abstractmethod
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  from collections.abc import Callable
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  from dataclasses import dataclass
@@ -204,7 +205,7 @@ rule:
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  export SPARK_MASTER_URL"""
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  for var_name, var_value in self.envvars.items():
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  shell_cmd += f"""
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- export {var_name}={var_value}"""
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+ export {var_name}={shlex.quote(str(var_value))}"""
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  # Log stdout/stderr to diagnostics directory
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  shell_cmd += f"""
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  {self.script_cmd} > {{log}} 2>&1
{easylink-0.1.23.dist-info → easylink-0.1.24.dist-info}/METADATA RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.4
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  Name: easylink
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- Version: 0.1.23
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+ Version: 0.1.24
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  Summary: Research repository for the EasyLink ER ecosystem project.
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  Home-page: https://github.com/ihmeuw/easylink
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  Author: The EasyLink developers
{easylink-0.1.23.dist-info → easylink-0.1.24.dist-info}/RECORD RENAMED
@@ -1,7 +1,7 @@
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  easylink/__about__.py,sha256=2-oxCfu9t9yUJouLDwqYRZ0eii8kN25SxRzsawjWjho,440
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  easylink/__init__.py,sha256=gGMcIVfiVnHtlDw5mZwhevcDb2wt-kuP6F64gnkFack,159
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- easylink/_version.py,sha256=0byemO6n6WCv41u9vBG2AIsOkVbxLvok7puvwy8EhfU,23
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- easylink/cli.py,sha256=zQO4lOVoZ3eVgPVWT2sCF4zNoKgiDJP9ReTh2Myr9jc,10307
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+ easylink/_version.py,sha256=Jq7e1LcKcQSNVg4EOJ-acPyPgs8Os5cYEZWXrQsI7Pg,23
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+ easylink/cli.py,sha256=06nv_3or9SxEynfi8rZTgYP1hm-Y_CeNymf5qn5s6Qo,10332
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  easylink/configuration.py,sha256=TPd3WbqUcJMJDPJuHeo5ZebvZPQrRyfm8-laad2sOFk,12681
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  easylink/graph_components.py,sha256=zZDZXg5smReHO3ryQC4pao24wyKXzWDe6jS3C6fM2ak,13892
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  easylink/implementation.py,sha256=lSF37g-aQYgdLI0lgFaDrBkp23te9O9B1V-CmmRtB-0,14514
@@ -9,7 +9,7 @@ easylink/implementation_metadata.yaml,sha256=pKu_H9fLnTsS8E4wCnYRitumW1-zs7mfE3z
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  easylink/pipeline.py,sha256=NJyMInbOCjJ_5kRzzuK5AcupvC7ecd5qLOC-f1Gy3Ss,17701
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  easylink/pipeline_graph.py,sha256=jtjS7_2IVa189U8cL621600erC_0pa6BKPRRO8VqwiU,23760
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  easylink/pipeline_schema.py,sha256=sj6YQqMFUS35RRFWdlrhPlud68d3Rb5y7iKfAEZy1qs,6877
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- easylink/rule.py,sha256=MM7WyW56J7zT2FVjHlFtjuz62PfdSBGTD3MNcpLfEZM,16598
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+ easylink/rule.py,sha256=n8r4NL7MiNzppl39MRbEMdHEpn_e_XS7LfrsJD6KNfA,16629
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  easylink/runner.py,sha256=Z9GKgiUAWtp0dW1cyAp86MGthIDeABJtHDXUtzv0-kE,6714
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  easylink/step.py,sha256=-vdFhPvwAZ3d69LMQGmSIVdcMG8E8ZtSvTE0UWif7zs,91088
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  easylink/devtools/implementation_creator.py,sha256=gZZpfpiOOh912nNjR_d5wR0mBO5c09jWMS0FSYRcE1o,19120
@@ -83,9 +83,9 @@ easylink/utilities/paths.py,sha256=9inDKMPorAaWh5vhjc3j1Tj_aXVKhLdodiJO9H1nNes,9
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  easylink/utilities/spark.smk,sha256=kGtpem7LfQc71tMh5WAYaqKnHQKFvcdhPQSdumOP70k,5799
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  easylink/utilities/splitter_utils.py,sha256=KXiVUYJ9TGxCQmrwos18pB1sxG_0Ay67qoDJT6vem2o,3828
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  easylink/utilities/validation_utils.py,sha256=DBJB2TLVklgYw1WaaPse9vqtwPLMGmZNYM2cbCZsoHI,18417
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- easylink-0.1.23.dist-info/licenses/LICENSE,sha256=z6NBo3hY2Pbh2Wjm9IcHLyQoG-kd816uASh8PbwhTcQ,1530
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- easylink-0.1.23.dist-info/METADATA,sha256=u-oRyBse4M0AsFkMjTuy0JCpul-BwHJ1JaD9fIALrHU,3565
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- easylink-0.1.23.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
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- easylink-0.1.23.dist-info/entry_points.txt,sha256=OGMZDFltg3yMboT7XjJt3joiPhRfV_7jnREVtrAIQNU,51
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- easylink-0.1.23.dist-info/top_level.txt,sha256=oHcOpcF_jDMWFiJRzfGQvuskENGDjSPC_Agu9Z_Xvik,9
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- easylink-0.1.23.dist-info/RECORD,,
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+ easylink-0.1.24.dist-info/licenses/LICENSE,sha256=z6NBo3hY2Pbh2Wjm9IcHLyQoG-kd816uASh8PbwhTcQ,1530
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+ easylink-0.1.24.dist-info/METADATA,sha256=qXBlEqCrYzAtLJGKC4Lqf_Q7pMn5gJdRxFGYDGUX4pE,3565
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+ easylink-0.1.24.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
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+ easylink-0.1.24.dist-info/entry_points.txt,sha256=OGMZDFltg3yMboT7XjJt3joiPhRfV_7jnREVtrAIQNU,51
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+ easylink-0.1.24.dist-info/top_level.txt,sha256=oHcOpcF_jDMWFiJRzfGQvuskENGDjSPC_Agu9Z_Xvik,9
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+ easylink-0.1.24.dist-info/RECORD,,