# HG changeset patch
# User iuc
# Date 1755191385 0
# Node ID a87adcb122b4f7e3bc4ce8822b7b53f65c9b92df
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ppanggolin commit e21d81020b381293e58e72ad54b782ce4a30ab56
diff -r 000000000000 -r a87adcb122b4 macros.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/macros.xml Thu Aug 14 17:09:45 2025 +0000
@@ -0,0 +1,86 @@
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+ 2.2.4
+ 1
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+ 10.1371/journal.pcbi.1007732
+ 10.1093/bioinformatics/btaa792
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+ ppanggolin
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+ ppanggolin
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+ > ./tmp_ppanggolin/organism_list/organism.list &&
+ #end for
+ ]]>
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+ value == "" or int(value) >= 2
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diff -r 000000000000 -r a87adcb122b4 ppanggolin_projection.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/ppanggolin_projection.xml Thu Aug 14 17:09:45 2025 +0000
@@ -0,0 +1,538 @@
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+ annotates external genomes using an existing pangenome
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+ macros.xml
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+ '${summary_projection}'
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+ ]]>
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+ advanced_pangenome_optional_files and "output_gene_to_gene_family" in advanced_pangenome_optional_files
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+ advanced_pangenome_optional_files and "output_input_genome_rgp_to_spot" in advanced_pangenome_optional_files
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+ advanced_pangenome_optional_files and "output_modules_in_input_genome" in advanced_pangenome_optional_files
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+ advanced_pangenome_optional_files and "output_genome_gff" in advanced_pangenome_optional_files
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+ advanced_pangenome_optional_files and "output_genome_proksee" in advanced_pangenome_optional_files
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+ advanced_pangenome_optional_files and "output_projection_summary" in advanced_pangenome_optional_files
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+ advanced_pangenome_optional_files and "output_regions_of_genomic_plasticity" in advanced_pangenome_optional_files
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+ advanced_pangenome_optional_files and "output_sequences_partition_projection" in advanced_pangenome_optional_files
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+ advanced_pangenome_optional_files and "output_specific_genes" in advanced_pangenome_optional_files
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diff -r 000000000000 -r a87adcb122b4 test-data/fasta/AP028611_984801_1194801.fasta.gz
Binary file test-data/fasta/AP028611_984801_1194801.fasta.gz has changed
diff -r 000000000000 -r a87adcb122b4 test-data/fasta/CP107038_1022972_1232972.fasta.gz
Binary file test-data/fasta/CP107038_1022972_1232972.fasta.gz has changed
diff -r 000000000000 -r a87adcb122b4 test-data/fasta/CP113115_1290693_1440693.fasta.gz
Binary file test-data/fasta/CP113115_1290693_1440693.fasta.gz has changed
diff -r 000000000000 -r a87adcb122b4 test-data/fasta/LN831051_1254175_1464175.fasta.gz
Binary file test-data/fasta/LN831051_1254175_1464175.fasta.gz has changed
diff -r 000000000000 -r a87adcb122b4 test-data/fasta/NC_012467_959209_1169209.fasta.gz
Binary file test-data/fasta/NC_012467_959209_1169209.fasta.gz has changed
diff -r 000000000000 -r a87adcb122b4 test-data/fasta/PROJECT1_984801_1194801.fasta.gz
Binary file test-data/fasta/PROJECT1_984801_1194801.fasta.gz has changed
diff -r 000000000000 -r a87adcb122b4 test-data/fasta/PROJECT5_1290693_1440693.fasta.gz
Binary file test-data/fasta/PROJECT5_1290693_1440693.fasta.gz has changed
diff -r 000000000000 -r a87adcb122b4 test-data/fasta/PROJECT8_1022972_1232972.fasta.gz
Binary file test-data/fasta/PROJECT8_1022972_1232972.fasta.gz has changed
diff -r 000000000000 -r a87adcb122b4 test-data/genbank/AP028611_984801_1194801.gb.gz
Binary file test-data/genbank/AP028611_984801_1194801.gb.gz has changed
diff -r 000000000000 -r a87adcb122b4 test-data/genbank/CP107038_1022972_1232972.gb.gz
Binary file test-data/genbank/CP107038_1022972_1232972.gb.gz has changed
diff -r 000000000000 -r a87adcb122b4 test-data/genbank/CP113115_1290693_1440693.gb.gz
Binary file test-data/genbank/CP113115_1290693_1440693.gb.gz has changed
diff -r 000000000000 -r a87adcb122b4 test-data/genbank/LN831051_1254175_1464175.gb.gz
Binary file test-data/genbank/LN831051_1254175_1464175.gb.gz has changed
diff -r 000000000000 -r a87adcb122b4 test-data/genbank/NC_012467_959209_1169209.gb.gz
Binary file test-data/genbank/NC_012467_959209_1169209.gb.gz has changed
diff -r 000000000000 -r a87adcb122b4 test-data/genbank/PROJECT1_984801_1194801.gb.gz
Binary file test-data/genbank/PROJECT1_984801_1194801.gb.gz has changed
diff -r 000000000000 -r a87adcb122b4 test-data/genbank/PROJECT5_1290693_1440693.gb.gz
Binary file test-data/genbank/PROJECT5_1290693_1440693.gb.gz has changed
diff -r 000000000000 -r a87adcb122b4 test-data/genbank/PROJECT8_1022972_1232972.gb.gz
Binary file test-data/genbank/PROJECT8_1022972_1232972.gb.gz has changed
diff -r 000000000000 -r a87adcb122b4 test-data/h5/test_data.h5
Binary file test-data/h5/test_data.h5 has changed