mgnify-pipelines-toolkit 0.1.7__py3-none-any.whl → 0.1.8__py3-none-any.whl

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Files changed (7) hide show
  1. mgnify_pipelines_toolkit/analysis/amplicon/make_asv_count_table.py +3 -1
  2. {mgnify_pipelines_toolkit-0.1.7.dist-info → mgnify_pipelines_toolkit-0.1.8.dist-info}/METADATA +1 -1
  3. {mgnify_pipelines_toolkit-0.1.7.dist-info → mgnify_pipelines_toolkit-0.1.8.dist-info}/RECORD +7 -7
  4. {mgnify_pipelines_toolkit-0.1.7.dist-info → mgnify_pipelines_toolkit-0.1.8.dist-info}/WHEEL +1 -1
  5. {mgnify_pipelines_toolkit-0.1.7.dist-info → mgnify_pipelines_toolkit-0.1.8.dist-info}/LICENSE +0 -0
  6. {mgnify_pipelines_toolkit-0.1.7.dist-info → mgnify_pipelines_toolkit-0.1.8.dist-info}/entry_points.txt +0 -0
  7. {mgnify_pipelines_toolkit-0.1.7.dist-info → mgnify_pipelines_toolkit-0.1.8.dist-info}/top_level.txt +0 -0
mgnify_pipelines_toolkit/analysis/amplicon/make_asv_count_table.py CHANGED
@@ -277,6 +277,8 @@ def main():
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  taxa_df = taxa_df.fillna("0")
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  taxa_df = order_df(taxa_df)
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+ asv_list = taxa_df.ASV.to_list()
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+
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  amp_reads = [read.strip() for read in list(open(amp, "r"))]
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  headers = [read.split(" ")[0][1:] for read in list(open(headers, "r"))]
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  amp_region = ".".join(amp.split(".")[1:3])
@@ -288,7 +290,7 @@ def main():
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  counter += 1
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  line_fwd = line_fwd.strip()
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- if line_fwd == "0":
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+ if line_fwd == "0" or f"seq_{line_fwd}" not in asv_list:
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  continue
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  if headers[counter] in amp_reads:
{mgnify_pipelines_toolkit-0.1.7.dist-info → mgnify_pipelines_toolkit-0.1.8.dist-info}/METADATA RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.1
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  Name: mgnify_pipelines_toolkit
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- Version: 0.1.7
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+ Version: 0.1.8
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  Summary: Collection of scripts and tools for MGnify pipelines
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  Author-email: MGnify team <metagenomics-help@ebi.ac.uk>
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  License: Apache Software License 2.0
{mgnify_pipelines_toolkit-0.1.7.dist-info → mgnify_pipelines_toolkit-0.1.8.dist-info}/RECORD RENAMED
@@ -6,7 +6,7 @@ mgnify_pipelines_toolkit/analysis/amplicon/assess_inflection_point_mcp.py,sha256
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  mgnify_pipelines_toolkit/analysis/amplicon/assess_mcp_proportions.py,sha256=aNucaUnYejl2Not4YLMBSzyYWGYJvYwLPZcFE94TIDc,5355
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  mgnify_pipelines_toolkit/analysis/amplicon/classify_var_regions.py,sha256=kIuE2wo3FaFZw2-HRGxstKz29FyGuhqVDRhf_vPZgsA,19921
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  mgnify_pipelines_toolkit/analysis/amplicon/find_mcp_inflection_points.py,sha256=EnsIrPGigsy8jVnjYgSECihhuquSJTgCi-k6fhusKYM,3547
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- mgnify_pipelines_toolkit/analysis/amplicon/make_asv_count_table.py,sha256=pvMDfq-KA9LrD359fvM1uXbXa2Mow5Fja-1iUoVdSEg,8676
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+ mgnify_pipelines_toolkit/analysis/amplicon/make_asv_count_table.py,sha256=ICFR8Ci_VofQFykasiSWwOwL_SH64PVcROoenw5jifE,8751
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  mgnify_pipelines_toolkit/analysis/amplicon/mapseq_to_asv_table.py,sha256=9QI6o85T4JPFq4EdKmnYzI6sxPLJG6t9W0xKiu24aqw,5035
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  mgnify_pipelines_toolkit/analysis/amplicon/primer_val_classification.py,sha256=d_Mco92RRUXSq5-5oFlXC0ZO83kbxwOREoCCyA2glDc,3751
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  mgnify_pipelines_toolkit/analysis/amplicon/remove_ambiguous_reads.py,sha256=8vwH6PY-XwMZhaUo08tOwdFsoREfNumvvDawTb9Y98U,3168
@@ -26,9 +26,9 @@ mgnify_pipelines_toolkit/constants/var_region_coordinates.py,sha256=jbOB_bTnW2TR
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  mgnify_pipelines_toolkit/utils/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  mgnify_pipelines_toolkit/utils/fasta_to_delimited.py,sha256=GbNT7clHso21w_1PbPpWKVRd5bNs_MDbGXt8XVIGl2o,3991
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  mgnify_pipelines_toolkit/utils/get_mpt_version.py,sha256=zsQ4TuR4vpqYa67MgIdopdscsS0DVJdy4enRe1nCjSs,793
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- mgnify_pipelines_toolkit-0.1.7.dist-info/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
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- mgnify_pipelines_toolkit-0.1.7.dist-info/METADATA,sha256=qCpuJs-FFtVbcNgmbj1pV1f2oHLeyiaGUkC1eRS1dLE,5859
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- mgnify_pipelines_toolkit-0.1.7.dist-info/WHEEL,sha256=GV9aMThwP_4oNCtvEC2ec3qUYutgWeAzklro_0m4WJQ,91
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- mgnify_pipelines_toolkit-0.1.7.dist-info/entry_points.txt,sha256=tCZ7ijAgfIn47xXGxNtoZbHTDyUfHjUzjXg-NBRlj6g,1646
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- mgnify_pipelines_toolkit-0.1.7.dist-info/top_level.txt,sha256=xA_wC7C01V3VwuDnqwRM2QYeJJ45WtvF6LVav4tYxuE,25
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- mgnify_pipelines_toolkit-0.1.7.dist-info/RECORD,,
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+ mgnify_pipelines_toolkit-0.1.8.dist-info/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
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+ mgnify_pipelines_toolkit-0.1.8.dist-info/METADATA,sha256=Uf-ukd_8rWTprPyipZQXTy4ZKdpxNezdwwPNwtNFbRk,5859
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+ mgnify_pipelines_toolkit-0.1.8.dist-info/WHEEL,sha256=OVMc5UfuAQiSplgO0_WdW7vXVGAt9Hdd6qtN4HotdyA,91
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+ mgnify_pipelines_toolkit-0.1.8.dist-info/entry_points.txt,sha256=tCZ7ijAgfIn47xXGxNtoZbHTDyUfHjUzjXg-NBRlj6g,1646
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+ mgnify_pipelines_toolkit-0.1.8.dist-info/top_level.txt,sha256=xA_wC7C01V3VwuDnqwRM2QYeJJ45WtvF6LVav4tYxuE,25
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+ mgnify_pipelines_toolkit-0.1.8.dist-info/RECORD,,
{mgnify_pipelines_toolkit-0.1.7.dist-info → mgnify_pipelines_toolkit-0.1.8.dist-info}/WHEEL RENAMED
@@ -1,5 +1,5 @@
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  Wheel-Version: 1.0
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- Generator: setuptools (75.1.0)
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+ Generator: setuptools (75.2.0)
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  Root-Is-Purelib: true
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  Tag: py3-none-any
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