From b4f56e92729a5127cb055b6f52bfb72877760737 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Thu, 22 Jul 2021 14:15:30 -0500
Subject: [PATCH] Add license info to pytest scripts

---
 CHANGELOG.md                             | 2 ++
 workflow/tests/test_alignReads.py        | 6 ++++++
 workflow/tests/test_completion.py        | 8 +++++++-
 workflow/tests/test_consistency.py       | 6 ++++++
 workflow/tests/test_dataQC.py            | 6 ++++++
 workflow/tests/test_dedupReads.py        | 6 ++++++
 workflow/tests/test_downsampleData.py    | 6 ++++++
 workflow/tests/test_fastqc.py            | 6 ++++++
 workflow/tests/test_getBag.py            | 6 ++++++
 workflow/tests/test_getData.py           | 6 ++++++
 workflow/tests/test_inferMetadata.py     | 6 ++++++
 workflow/tests/test_makeBigWig.py        | 6 ++++++
 workflow/tests/test_makeFeatureCounts.py | 6 ++++++
 workflow/tests/test_outputBag.py         | 6 ++++++
 workflow/tests/test_parseMetadata.py     | 6 ++++++
 workflow/tests/test_seqwho.py            | 6 ++++++
 workflow/tests/test_trimData.py          | 6 ++++++
 17 files changed, 99 insertions(+), 1 deletion(-)

diff --git a/CHANGELOG.md b/CHANGELOG.md
index 68623b7..534c90c 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -9,6 +9,8 @@
 * Use CI staging RIDs for CI unit tests: getBag, uploadInputBag, uploadExecutionRun, uploadQC, uploadProcessedFiles, uploadOutputBag (#133)
 * Add `-u "F"` to CI unit test uploadOutputBag `upload_output_bag.py`
 * Remove "fail" integration CI tests (#133 addendum)
+* Add licence header to nf file,  R and python scriptsand pytest scripts
+* add nodefaults to deriva.core insert calls to match server update (#134)
 
 # v2.0.0
 **User Facing**
diff --git a/workflow/tests/test_alignReads.py b/workflow/tests/test_alignReads.py
index 06429a5..4e0b81c 100644
--- a/workflow/tests/test_alignReads.py
+++ b/workflow/tests/test_alignReads.py
@@ -1,4 +1,10 @@
 #!/usr/bin/env python3
+#test_alignReads.py
+#*
+#* --------------------------------------------------------------------------
+#* Licensed under MIT (https://git.biohpc.swmed.edu/gudmap_rbk/rna-seq/-/blob/14a1c222e53f59391d96a2a2e1fd4995474c0d15/LICENSE)
+#* --------------------------------------------------------------------------
+#*
 
 import pytest
 import pandas as pd
diff --git a/workflow/tests/test_completion.py b/workflow/tests/test_completion.py
index 25a9941..fefa9b9 100644
--- a/workflow/tests/test_completion.py
+++ b/workflow/tests/test_completion.py
@@ -1,4 +1,10 @@
 #!/usr/bin/env python3
+#test_completion.py
+#*
+#* --------------------------------------------------------------------------
+#* Licensed under MIT (https://git.biohpc.swmed.edu/gudmap_rbk/rna-seq/-/blob/14a1c222e53f59391d96a2a2e1fd4995474c0d15/LICENSE)
+#* --------------------------------------------------------------------------
+#*
 
 import pytest
 import pandas as pd
@@ -12,4 +18,4 @@ test_output_path = os.path.dirname(os.path.abspath(__file__)) + \
 @pytest.mark.completionMultiqc
 def test_multiqcExist(filename):
     assert os.path.exists(os.path.join(
-        test_output_path, filename))
\ No newline at end of file
+        test_output_path, filename))
diff --git a/workflow/tests/test_consistency.py b/workflow/tests/test_consistency.py
index aa04f19..568589f 100644
--- a/workflow/tests/test_consistency.py
+++ b/workflow/tests/test_consistency.py
@@ -1,4 +1,10 @@
 #!/usr/bin/env python3
+#test_consistency.py
+#*
+#* --------------------------------------------------------------------------
+#* Licensed under MIT (https://git.biohpc.swmed.edu/gudmap_rbk/rna-seq/-/blob/14a1c222e53f59391d96a2a2e1fd4995474c0d15/LICENSE)
+#* --------------------------------------------------------------------------
+#*
 
 import pytest
 import pandas as pd
diff --git a/workflow/tests/test_dataQC.py b/workflow/tests/test_dataQC.py
index 55df66d..ec4409a 100644
--- a/workflow/tests/test_dataQC.py
+++ b/workflow/tests/test_dataQC.py
@@ -1,4 +1,10 @@
 #!/usr/bin/env python3
+#test_dataQC.py
+#*
+#* --------------------------------------------------------------------------
+#* Licensed under MIT (https://git.biohpc.swmed.edu/gudmap_rbk/rna-seq/-/blob/14a1c222e53f59391d96a2a2e1fd4995474c0d15/LICENSE)
+#* --------------------------------------------------------------------------
+#*
 
 import pytest
 import pandas as pd
diff --git a/workflow/tests/test_dedupReads.py b/workflow/tests/test_dedupReads.py
index 15e227d..ca299cd 100644
--- a/workflow/tests/test_dedupReads.py
+++ b/workflow/tests/test_dedupReads.py
@@ -1,4 +1,10 @@
 #!/usr/bin/env python3
+#test_dedupReads.py
+#*
+#* --------------------------------------------------------------------------
+#* Licensed under MIT (https://git.biohpc.swmed.edu/gudmap_rbk/rna-seq/-/blob/14a1c222e53f59391d96a2a2e1fd4995474c0d15/LICENSE)
+#* --------------------------------------------------------------------------
+#*
 
 import pytest
 import pandas as pd
diff --git a/workflow/tests/test_downsampleData.py b/workflow/tests/test_downsampleData.py
index 6d98ad6..1fc9f17 100644
--- a/workflow/tests/test_downsampleData.py
+++ b/workflow/tests/test_downsampleData.py
@@ -1,4 +1,10 @@
 #!/usr/bin/env python3
+#test_downsampleData.py
+#*
+#* --------------------------------------------------------------------------
+#* Licensed under MIT (https://git.biohpc.swmed.edu/gudmap_rbk/rna-seq/-/blob/14a1c222e53f59391d96a2a2e1fd4995474c0d15/LICENSE)
+#* --------------------------------------------------------------------------
+#*
 
 import pytest
 import pandas as pd
diff --git a/workflow/tests/test_fastqc.py b/workflow/tests/test_fastqc.py
index 07e7610..86ae3ce 100644
--- a/workflow/tests/test_fastqc.py
+++ b/workflow/tests/test_fastqc.py
@@ -1,4 +1,10 @@
 #!/usr/bin/env python3
+#test_fastqc.py
+#*
+#* --------------------------------------------------------------------------
+#* Licensed under MIT (https://git.biohpc.swmed.edu/gudmap_rbk/rna-seq/-/blob/14a1c222e53f59391d96a2a2e1fd4995474c0d15/LICENSE)
+#* --------------------------------------------------------------------------
+#*
 
 import pytest
 import pandas as pd
diff --git a/workflow/tests/test_getBag.py b/workflow/tests/test_getBag.py
index 23bfc0e..76f4c6a 100644
--- a/workflow/tests/test_getBag.py
+++ b/workflow/tests/test_getBag.py
@@ -1,4 +1,10 @@
 #!/usr/bin/env python3
+#test_getBag.py
+#*
+#* --------------------------------------------------------------------------
+#* Licensed under MIT (https://git.biohpc.swmed.edu/gudmap_rbk/rna-seq/-/blob/14a1c222e53f59391d96a2a2e1fd4995474c0d15/LICENSE)
+#* --------------------------------------------------------------------------
+#*
 
 import pytest
 import pandas as pd
diff --git a/workflow/tests/test_getData.py b/workflow/tests/test_getData.py
index 596a120..f89d9c9 100644
--- a/workflow/tests/test_getData.py
+++ b/workflow/tests/test_getData.py
@@ -1,4 +1,10 @@
 #!/usr/bin/env python3
+#test_getData.py
+#*
+#* --------------------------------------------------------------------------
+#* Licensed under MIT (https://git.biohpc.swmed.edu/gudmap_rbk/rna-seq/-/blob/14a1c222e53f59391d96a2a2e1fd4995474c0d15/LICENSE)
+#* --------------------------------------------------------------------------
+#*
 
 import pytest
 import pandas as pd
diff --git a/workflow/tests/test_inferMetadata.py b/workflow/tests/test_inferMetadata.py
index 7485163..e10be17 100644
--- a/workflow/tests/test_inferMetadata.py
+++ b/workflow/tests/test_inferMetadata.py
@@ -1,4 +1,10 @@
 #!/usr/bin/env python3
+#test_inferMetadata.py
+#*
+#* --------------------------------------------------------------------------
+#* Licensed under MIT (https://git.biohpc.swmed.edu/gudmap_rbk/rna-seq/-/blob/14a1c222e53f59391d96a2a2e1fd4995474c0d15/LICENSE)
+#* --------------------------------------------------------------------------
+#*
 
 import pytest
 import pandas as pd
diff --git a/workflow/tests/test_makeBigWig.py b/workflow/tests/test_makeBigWig.py
index 273b2cd..2b72fc5 100644
--- a/workflow/tests/test_makeBigWig.py
+++ b/workflow/tests/test_makeBigWig.py
@@ -1,4 +1,10 @@
 #!/usr/bin/env python3
+#test_makeBigWig.py
+#*
+#* --------------------------------------------------------------------------
+#* Licensed under MIT (https://git.biohpc.swmed.edu/gudmap_rbk/rna-seq/-/blob/14a1c222e53f59391d96a2a2e1fd4995474c0d15/LICENSE)
+#* --------------------------------------------------------------------------
+#*
 
 import pytest
 import pandas as pd
diff --git a/workflow/tests/test_makeFeatureCounts.py b/workflow/tests/test_makeFeatureCounts.py
index 43e6810..2aa54b9 100644
--- a/workflow/tests/test_makeFeatureCounts.py
+++ b/workflow/tests/test_makeFeatureCounts.py
@@ -1,4 +1,10 @@
 #!/usr/bin/env python3
+#test_makeFeatureCounts.py
+#*
+#* --------------------------------------------------------------------------
+#* Licensed under MIT (https://git.biohpc.swmed.edu/gudmap_rbk/rna-seq/-/blob/14a1c222e53f59391d96a2a2e1fd4995474c0d15/LICENSE)
+#* --------------------------------------------------------------------------
+#*
 
 import pytest
 import pandas as pd
diff --git a/workflow/tests/test_outputBag.py b/workflow/tests/test_outputBag.py
index c73e647..a633294 100644
--- a/workflow/tests/test_outputBag.py
+++ b/workflow/tests/test_outputBag.py
@@ -1,4 +1,10 @@
 #!/usr/bin/env python3
+#test_outputBag.py
+#*
+#* --------------------------------------------------------------------------
+#* Licensed under MIT (https://git.biohpc.swmed.edu/gudmap_rbk/rna-seq/-/blob/14a1c222e53f59391d96a2a2e1fd4995474c0d15/LICENSE)
+#* --------------------------------------------------------------------------
+#*
 
 import pytest
 import pandas as pd
diff --git a/workflow/tests/test_parseMetadata.py b/workflow/tests/test_parseMetadata.py
index 738f5ec..1db3a31 100644
--- a/workflow/tests/test_parseMetadata.py
+++ b/workflow/tests/test_parseMetadata.py
@@ -1,4 +1,10 @@
 #!/usr/bin/env python3
+#test_parseMetadata.py
+#*
+#* --------------------------------------------------------------------------
+#* Licensed under MIT (https://git.biohpc.swmed.edu/gudmap_rbk/rna-seq/-/blob/14a1c222e53f59391d96a2a2e1fd4995474c0d15/LICENSE)
+#* --------------------------------------------------------------------------
+#*
 
 import pytest
 import pandas as pd
diff --git a/workflow/tests/test_seqwho.py b/workflow/tests/test_seqwho.py
index 051cc4b..c35d119 100644
--- a/workflow/tests/test_seqwho.py
+++ b/workflow/tests/test_seqwho.py
@@ -1,4 +1,10 @@
 #!/usr/bin/env python3
+#test_seqwho.py
+#*
+#* --------------------------------------------------------------------------
+#* Licensed under MIT (https://git.biohpc.swmed.edu/gudmap_rbk/rna-seq/-/blob/14a1c222e53f59391d96a2a2e1fd4995474c0d15/LICENSE)
+#* --------------------------------------------------------------------------
+#*
 
 import pytest
 import pandas as pd
diff --git a/workflow/tests/test_trimData.py b/workflow/tests/test_trimData.py
index a0938e7..fe7072a 100644
--- a/workflow/tests/test_trimData.py
+++ b/workflow/tests/test_trimData.py
@@ -1,4 +1,10 @@
 #!/usr/bin/env python3
+#test_trimData.py
+#*
+#* --------------------------------------------------------------------------
+#* Licensed under MIT (https://git.biohpc.swmed.edu/gudmap_rbk/rna-seq/-/blob/14a1c222e53f59391d96a2a2e1fd4995474c0d15/LICENSE)
+#* --------------------------------------------------------------------------
+#*
 
 import pytest
 import pandas as pd
-- 
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