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ENA upload tool ISA - JSON support fix #5914

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merged 2 commits into from
Mar 27, 2024
Merged

ENA upload tool ISA - JSON support fix #5914

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2fc11f2
ena upload fix
bedroesb Mar 27, 2024
e23721c
no double dolar sign
bedroesb Mar 27, 2024
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4 changes: 2 additions & 2 deletions tools/ena_upload/ena_upload.xml
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Original file line number Diff line number Diff line change
Expand Up @@ -2,7 +2,7 @@
<description>Submission of (meta)data to the European Nucleotide Archive (ENA)</description>
<macros>
<token name="@TOOL_VERSION@">0.7.1</token>
<token name="@VERSION_SUFFIX@">0</token>
<token name="@VERSION_SUFFIX@">1</token>
<import>samples_macros.xml</import>
</macros>
<requirements>
Expand Down Expand Up @@ -196,7 +196,7 @@ ena-upload-cli
--sample '$samples_table_path'
#elif $action_options.input_format_conditional.input_format == "isa_json":
--isa_json ./isa_json_input.json
--isa_assay_stream '$isa_assay_stream'
--isa_assay_stream '$action_options.input_format_conditional.isa_assay_stream'
#end if
#if $action_options.input_format_conditional.input_format == "build_tables":
#if $action_options.input_format_conditional.conditional_viral_metadata.viral_sample == "True":
Expand Down