diff --git a/tools/fastk/.shed.yml b/tools/fastk/.shed.yml new file mode 100644 index 00000000000..d62ea55296c --- /dev/null +++ b/tools/fastk/.shed.yml @@ -0,0 +1,10 @@ +categories: +- Assembly +description: "FastK: A K-mer counter (for HQ assembly data sets)" +homepage_url: https://github.com/thegenemyers/FASTK +long_description: | + FastK is a k‑mer counter that is optimized for processing high-quality DNA assembly data sets such as those produced with an Illumina instrument or a PacBio run in HiFi mode. +name: fastk +owner: iuc +remote_repository_url: https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastk +type: unrestricted diff --git a/tools/fastk/fastk.xml b/tools/fastk/fastk.xml new file mode 100644 index 00000000000..93098f4c9c7 --- /dev/null +++ b/tools/fastk/fastk.xml @@ -0,0 +1,172 @@ + + A k-mer counter for high-quality assembly datasets + + macros.xml + + + tabex.txt + #end if + && tar -c -f fastk.tar ./outfiles/ + #elif $operation_type.command_type == 'Histex': + Histex + #elif $operation_type.command_type == 'Tabex': + Tabex + #elif $operation_type.command_type == 'Profex': + Profex + #elif $operation_type.command_type == 'Logex': + Logex + #elif $operation_type.command_type == 'Symmex': + Symmex + #end if + ]]> + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ +
+
+
+
+ + + + + + + + + + +
+
+ + + + + operation_type['command_type'] == 'FastK' and operation_type['sorted_table'] == 'yes' and operation_type['sorted_table_presence'] == 'yes' + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ diff --git a/tools/fastk/macros.xml b/tools/fastk/macros.xml new file mode 100644 index 00000000000..1252f503b59 --- /dev/null +++ b/tools/fastk/macros.xml @@ -0,0 +1,23 @@ + + 1.0.0 + 0 + + + fastk + + + + + + @misc{github, + author = {Gene Meyers}, + year = {2020}, + title = {FastK}, + publisher = {GitHub}, + journal = {GitHub repository}, + url = {https://github.com/thegenemyers/FASTK}, + } + + + + diff --git a/tools/fastk/test-data/input01.fasta.gz b/tools/fastk/test-data/input01.fasta.gz new file mode 100644 index 00000000000..5bdbff98462 Binary files /dev/null and b/tools/fastk/test-data/input01.fasta.gz differ diff --git a/tools/fastk/test-data/test02.tabex.txt b/tools/fastk/test-data/test02.tabex.txt new file mode 100644 index 00000000000..4920a7cfaa8 Binary files /dev/null and b/tools/fastk/test-data/test02.tabex.txt differ diff --git a/tools/fastk/test-data/test03.tabex.txt b/tools/fastk/test-data/test03.tabex.txt new file mode 100644 index 00000000000..4920a7cfaa8 Binary files /dev/null and b/tools/fastk/test-data/test03.tabex.txt differ