# HG changeset patch
# User galaxy-australia
# Date 1721623873 0
# Node ID 28928576e1ea7a2ce0e10a4f4d2929d10d817011
# Parent  18a8d140ec6f722594b0c92b06fa16e32c75ad2d
planemo upload for repository https://github.com/usegalaxy-au/tools-au/tree/main/tools/dorado commit c42b6e3fd2cf6d26e231645a9e8a2986503279e2

diff -r 18a8d140ec6f -r 28928576e1ea README.md
--- a/README.md	Fri Jun 28 03:38:39 2024 +0000
+++ b/README.md	Mon Jul 22 04:51:13 2024 +0000
@@ -25,8 +25,8 @@
 Because models can be added and removed, models are listed **per container** in
 the loc file.
 
-Here's some code to **append** the models from the container with hash
-`1c65eb070a9fc1d88710c4dc09b06541f96fdd28`  to the loc file.
+Here's some code to update the loc file with models from the container with hash
+`1c65eb070a9fc1d88710c4dc09b06541f96fdd28`.
 
 ```bash
 export DORADO_HASH="1c65eb070a9fc1d88710c4dc09b06541f96fdd28"
@@ -34,7 +34,7 @@
 apptainer exec "docker://nanoporetech/dorado:sha${DORADO_HASH}" \
     ls /models | \
     awk -v hash="${DORADO_HASH}" '{print hash "_" $0 "\t" hash "\t" $0 "\t/models/" $0}' \
-    >> tool-data/dorado_models.loc.sample
+    > tool-data/dorado_models.loc.sample
 ```
 
 The loc file doesn't have a header, so you can keep it sorted.
diff -r 18a8d140ec6f -r 28928576e1ea dorado_pod5_convert.xml
--- a/dorado_pod5_convert.xml	Fri Jun 28 03:38:39 2024 +0000
+++ b/dorado_pod5_convert.xml	Mon Jul 22 04:51:13 2024 +0000
@@ -1,4 +1,4 @@
-<tool id="dorado_pod5_convert" name="fast5 to pod5" version="@VERSION@+galaxy0" python_template_version="3.5" profile="21.05">
+<tool id="dorado_pod5_convert" name="fast5 to pod5" version="@VERSION@+galaxy0" python_template_version="3.5" profile="24.1">
     <description>converter for raw Oxford Nanopore data</description>
     <macros>
         <import>macros.xml</import>
@@ -27,14 +27,12 @@
         <param name="fast5_in" type="data" format="fast5.tar" label="Oxford Nanopore raw data in fast5 format in a tar archive."/>
     </inputs>
     <outputs>
-        <!-- FIXME: add pod5 datatype to Galaxy and change here.
-        https://github.com/galaxyproject/galaxy/pull/18419 -->
-        <data format="binary" name="pod5_out" label="${on_string} converted to pod5 from fast5" from_work_dir="output.pod5"/>
+        <data format="pod5" name="pod5_out" label="${on_string} converted to pod5 from fast5" from_work_dir="output.pod5"/>
     </outputs>
     <tests>
         <test expect_num_outputs="1">
             <param name="fast5_in" ftype="fast5.tar" value="FAL00375_473bf0ed_0.ten_reads.0_0.fast5.tar"/>
-            <output name="pod5_out" ftype="binary">
+            <output name="pod5_out" ftype="pod5">
                 <assert_contents>
                     <has_size value="519736" delta="50000"/>
                 </assert_contents>
@@ -42,7 +40,7 @@
         </test>
         <test expect_num_outputs="1">
             <param name="fast5_in" ftype="fast5.tar.gz" value="reads_in_directories.tar.gz"/>
-            <output name="pod5_out" ftype="binary">
+            <output name="pod5_out" ftype="pod5">
                 <assert_contents>
                     <has_size value="950136" delta="90000"/>
                 </assert_contents>
diff -r 18a8d140ec6f -r 28928576e1ea macros.xml
--- a/macros.xml	Fri Jun 28 03:38:39 2024 +0000
+++ b/macros.xml	Mon Jul 22 04:51:13 2024 +0000
@@ -1,7 +1,7 @@
 <macros>
     <!-- UPDATING: pull the latest container and check the version. Update both tokens. You MUST also update the model list. See README.md for more.  -->
-    <token name="@VERSION@">0.7.1+80da5f5</token>
-    <token name="@CONTAINER_HASH@">1c65eb070a9fc1d88710c4dc09b06541f96fdd28</token>
+    <token name="@VERSION@">0.7.2+9ac85c6</token>
+    <token name="@CONTAINER_HASH@">58b978562389bd0f1842601fb83cdf1eb2920218</token>
     <xml name="requirements">
         <requirements>
             <container type="docker">nanoporetech/dorado:sha@CONTAINER_HASH@</container>
diff -r 18a8d140ec6f -r 28928576e1ea test-data/dorado_models.loc
--- a/test-data/dorado_models.loc	Fri Jun 28 03:38:39 2024 +0000
+++ b/test-data/dorado_models.loc	Mon Jul 22 04:51:13 2024 +0000
@@ -1,58 +1,59 @@
-1c65eb070a9fc1d88710c4dc09b06541f96fdd28_dna_r10.4.1_e8.2_260bps_fast@v4.1.0	1c65eb070a9fc1d88710c4dc09b06541f96fdd28	dna_r10.4.1_e8.2_260bps_fast@v4.1.0	/models/dna_r10.4.1_e8.2_260bps_fast@v4.1.0
-1c65eb070a9fc1d88710c4dc09b06541f96fdd28_dna_r10.4.1_e8.2_260bps_fast@v4.1.0_5mCG_5hmCG@v2	1c65eb070a9fc1d88710c4dc09b06541f96fdd28	dna_r10.4.1_e8.2_260bps_fast@v4.1.0_5mCG_5hmCG@v2	/models/dna_r10.4.1_e8.2_260bps_fast@v4.1.0_5mCG_5hmCG@v2
-1c65eb070a9fc1d88710c4dc09b06541f96fdd28_dna_r10.4.1_e8.2_260bps_hac@v4.1.0	1c65eb070a9fc1d88710c4dc09b06541f96fdd28	dna_r10.4.1_e8.2_260bps_hac@v4.1.0	/models/dna_r10.4.1_e8.2_260bps_hac@v4.1.0
-1c65eb070a9fc1d88710c4dc09b06541f96fdd28_dna_r10.4.1_e8.2_260bps_hac@v4.1.0_5mCG_5hmCG@v2	1c65eb070a9fc1d88710c4dc09b06541f96fdd28	dna_r10.4.1_e8.2_260bps_hac@v4.1.0_5mCG_5hmCG@v2	/models/dna_r10.4.1_e8.2_260bps_hac@v4.1.0_5mCG_5hmCG@v2
-1c65eb070a9fc1d88710c4dc09b06541f96fdd28_dna_r10.4.1_e8.2_260bps_sup@v4.1.0	1c65eb070a9fc1d88710c4dc09b06541f96fdd28	dna_r10.4.1_e8.2_260bps_sup@v4.1.0	/models/dna_r10.4.1_e8.2_260bps_sup@v4.1.0
-1c65eb070a9fc1d88710c4dc09b06541f96fdd28_dna_r10.4.1_e8.2_260bps_sup@v4.1.0_5mCG_5hmCG@v2	1c65eb070a9fc1d88710c4dc09b06541f96fdd28	dna_r10.4.1_e8.2_260bps_sup@v4.1.0_5mCG_5hmCG@v2	/models/dna_r10.4.1_e8.2_260bps_sup@v4.1.0_5mCG_5hmCG@v2
-1c65eb070a9fc1d88710c4dc09b06541f96fdd28_dna_r10.4.1_e8.2_400bps_fast@v4.1.0	1c65eb070a9fc1d88710c4dc09b06541f96fdd28	dna_r10.4.1_e8.2_400bps_fast@v4.1.0	/models/dna_r10.4.1_e8.2_400bps_fast@v4.1.0
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-1c65eb070a9fc1d88710c4dc09b06541f96fdd28_dna_r10.4.1_e8.2_400bps_fast@v4.2.0	1c65eb070a9fc1d88710c4dc09b06541f96fdd28	dna_r10.4.1_e8.2_400bps_fast@v4.2.0	/models/dna_r10.4.1_e8.2_400bps_fast@v4.2.0
-1c65eb070a9fc1d88710c4dc09b06541f96fdd28_dna_r10.4.1_e8.2_400bps_fast@v4.2.0_5mCG_5hmCG@v2	1c65eb070a9fc1d88710c4dc09b06541f96fdd28	dna_r10.4.1_e8.2_400bps_fast@v4.2.0_5mCG_5hmCG@v2	/models/dna_r10.4.1_e8.2_400bps_fast@v4.2.0_5mCG_5hmCG@v2
-1c65eb070a9fc1d88710c4dc09b06541f96fdd28_dna_r10.4.1_e8.2_400bps_fast@v4.3.0	1c65eb070a9fc1d88710c4dc09b06541f96fdd28	dna_r10.4.1_e8.2_400bps_fast@v4.3.0	/models/dna_r10.4.1_e8.2_400bps_fast@v4.3.0
-1c65eb070a9fc1d88710c4dc09b06541f96fdd28_dna_r10.4.1_e8.2_400bps_fast@v5.0.0	1c65eb070a9fc1d88710c4dc09b06541f96fdd28	dna_r10.4.1_e8.2_400bps_fast@v5.0.0	/models/dna_r10.4.1_e8.2_400bps_fast@v5.0.0
-1c65eb070a9fc1d88710c4dc09b06541f96fdd28_dna_r10.4.1_e8.2_400bps_hac@v4.1.0	1c65eb070a9fc1d88710c4dc09b06541f96fdd28	dna_r10.4.1_e8.2_400bps_hac@v4.1.0	/models/dna_r10.4.1_e8.2_400bps_hac@v4.1.0
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diff -r 18a8d140ec6f -r 28928576e1ea tool-data/dorado_models.loc.sample
--- a/tool-data/dorado_models.loc.sample	Fri Jun 28 03:38:39 2024 +0000
+++ b/tool-data/dorado_models.loc.sample	Mon Jul 22 04:51:13 2024 +0000
@@ -1,58 +1,59 @@
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