diff --git a/workflows/amplicon/qiime2/qiime2-I-import/CHANGELOG.md b/workflows/amplicon/qiime2/qiime2-I-import/CHANGELOG.md
index 886170a1e..21d4dd586 100644
--- a/workflows/amplicon/qiime2/qiime2-I-import/CHANGELOG.md
+++ b/workflows/amplicon/qiime2/qiime2-I-import/CHANGELOG.md
@@ -1,6 +1,15 @@
 # Changelog
 
+## [0.3] 2024-11-04
+
+### Automatic update
+- `toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2023.5.0+dist.h193f7cc9.3` was updated to `toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2024.10.0+dist.h3d8a7e27`
+- `toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__emp_single/qiime2__demux__emp_single/2023.5.0+q2galaxy.2023.5.0.2` was updated to `toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__emp_single/qiime2__demux__emp_single/2024.10.0+q2galaxy.2024.10.0`
+- `toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2023.5.0+q2galaxy.2023.5.0.2` was updated to `toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2024.10.0+q2galaxy.2024.10.0`
+- `toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__emp_paired/qiime2__demux__emp_paired/2023.5.0+q2galaxy.2023.5.0.2` was updated to `toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__emp_paired/qiime2__demux__emp_paired/2024.10.0+q2galaxy.2024.10.0`
+
+## [0.2] 2024-05-23
+Fix dockstore.yml and test.
+
 ## [0.1] 2024-04-08
 First release.
-## [0.2] 2024-05-23
-Fix dockstore.yml and test.
\ No newline at end of file
diff --git a/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ia-multiplexed-data-single-end.ga b/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ia-multiplexed-data-single-end.ga
index 1dad6979a..974c98df5 100644
--- a/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ia-multiplexed-data-single-end.ga
+++ b/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ia-multiplexed-data-single-end.ga
@@ -15,7 +15,7 @@
     ],
     "format-version": "0.1",
     "license": "MIT",
-    "release": "0.2",
+    "release": "0.3",
     "name": "QIIME2 Ia: multiplexed data (single-end)",
     "steps": {
         "0": {
@@ -73,7 +73,7 @@
             "workflow_outputs": []
         },
         "2": {
-            "annotation": "Metadata",
+            "annotation": "A tab separated metadata file",
             "content_id": null,
             "errors": null,
             "id": 2,
@@ -127,7 +127,7 @@
             "workflow_outputs": []
         },
         "4": {
-            "annotation": "Reverse complement barcodes",
+            "annotation": "If reverse complement of barcodes is necessary for the analysis, choose Yes.",
             "content_id": null,
             "errors": null,
             "id": 4,
@@ -155,7 +155,7 @@
         },
         "5": {
             "annotation": "qiime2 tools input\nThis step allows the input of the files to be analysed and then generate a qza output, necessary for the QIIME2 pipeline.",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2023.5.0+dist.h193f7cc9.3",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2024.10.0+dist.h3d8a7e27",
             "errors": null,
             "id": 5,
             "input_connections": {
@@ -195,15 +195,15 @@
                     "output_name": "imported_data"
                 }
             },
-            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2023.5.0+dist.h193f7cc9.3",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2024.10.0+dist.h3d8a7e27",
             "tool_shed_repository": {
-                "changeset_revision": "10447a4b0cc3",
+                "changeset_revision": "8a0db69428c7",
                 "name": "qiime2_core__tools__import",
                 "owner": "q2d2",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
-            "tool_state": "{\"import_root\": {\"type\": \"EMPSingleEndSequences\", \"__current_case__\": 5, \"__q2galaxy__GUI__cond__format__\": {\"format\": \"EMPSingleEndDirFmt\", \"__current_case__\": 1, \"import_sequences\": {\"name\": \"sequences.fastq.gz\", \"data\": {\"__class__\": \"ConnectedValue\"}}, \"import_barcodes\": {\"name\": \"barcodes.fastq.gz\", \"data\": {\"__class__\": \"ConnectedValue\"}}}}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
-            "tool_version": "2023.5.0+dist.h193f7cc9.3",
+            "tool_state": "{\"import_root\": {\"type\": \"EMPSingleEndSequences\", \"__current_case__\": 17, \"__q2galaxy__GUI__cond__format__\": {\"format\": \"EMPSingleEndDirFmt\", \"__current_case__\": 1, \"import_sequences\": {\"name\": \"sequences.fastq.gz\", \"data\": {\"__class__\": \"ConnectedValue\"}}, \"import_barcodes\": {\"name\": \"barcodes.fastq.gz\", \"data\": {\"__class__\": \"ConnectedValue\"}}}}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
+            "tool_version": "2024.10.0+dist.h3d8a7e27",
             "type": "tool",
             "uuid": "b39f05da-9f23-47ff-9695-b21bb61f18a2",
             "when": null,
@@ -211,7 +211,7 @@
         },
         "6": {
             "annotation": "Import the metadata as artifact",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2023.5.0+dist.h193f7cc9.3",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2024.10.0+dist.h3d8a7e27",
             "errors": null,
             "id": 6,
             "input_connections": {
@@ -247,15 +247,15 @@
                     "output_name": "imported_data"
                 }
             },
-            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2023.5.0+dist.h193f7cc9.3",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2024.10.0+dist.h3d8a7e27",
             "tool_shed_repository": {
-                "changeset_revision": "10447a4b0cc3",
+                "changeset_revision": "8a0db69428c7",
                 "name": "qiime2_core__tools__import",
                 "owner": "q2d2",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
-            "tool_state": "{\"import_root\": {\"type\": \"ImmutableMetadata\", \"__current_case__\": 29, \"__q2galaxy__GUI__cond__format__\": {\"format\": \"ImmutableMetadataFormat\", \"__current_case__\": 0, \"import\": {\"name\": \"__q2galaxy__::literal::None\", \"data\": {\"__class__\": \"ConnectedValue\"}}}}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
-            "tool_version": "2023.5.0+dist.h193f7cc9.3",
+            "tool_state": "{\"import_root\": {\"type\": \"ImmutableMetadata\", \"__current_case__\": 58, \"__q2galaxy__GUI__cond__format__\": {\"format\": \"ImmutableMetadataFormat\", \"__current_case__\": 0, \"import\": {\"name\": \"__q2galaxy__::literal::None\", \"data\": {\"__class__\": \"ConnectedValue\"}}}}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
+            "tool_version": "2024.10.0+dist.h3d8a7e27",
             "type": "tool",
             "uuid": "9caaabce-3a1a-4bf9-9fa0-d6fbe24a4bb4",
             "when": null,
@@ -263,7 +263,7 @@
         },
         "7": {
             "annotation": "qiime2 demux emp-single\nDemultiplex sequence data generated with the EMP protocol.",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__emp_single/qiime2__demux__emp_single/2023.5.0+q2galaxy.2023.5.0.2",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__emp_single/qiime2__demux__emp_single/2024.10.0+q2galaxy.2024.10.0",
             "errors": null,
             "id": 7,
             "input_connections": {
@@ -284,7 +284,20 @@
                     "output_name": "imported_data"
                 }
             },
-            "inputs": [],
+            "inputs": [
+                {
+                    "description": "runtime parameter for tool qiime2 demux emp-single",
+                    "name": "__q2galaxy__GUI__section__extra_opts__"
+                },
+                {
+                    "description": "runtime parameter for tool qiime2 demux emp-single",
+                    "name": "barcodes"
+                },
+                {
+                    "description": "runtime parameter for tool qiime2 demux emp-single",
+                    "name": "barcodes"
+                }
+            ],
             "label": "Demultiplex single-end data",
             "name": "qiime2 demux emp-single",
             "outputs": [
@@ -322,15 +335,15 @@
                     "output_name": "per_sample_sequences"
                 }
             },
-            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__emp_single/qiime2__demux__emp_single/2023.5.0+q2galaxy.2023.5.0.2",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__emp_single/qiime2__demux__emp_single/2024.10.0+q2galaxy.2024.10.0",
             "tool_shed_repository": {
-                "changeset_revision": "75b07a996ac0",
+                "changeset_revision": "8e01d149bcdb",
                 "name": "qiime2__demux__emp_single",
                 "owner": "q2d2",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
             "tool_state": "{\"__q2galaxy__GUI__section__extra_opts__\": {\"golay_error_correction\": true, \"rev_comp_barcodes\": false, \"rev_comp_mapping_barcodes\": {\"__class__\": \"ConnectedValue\"}, \"ignore_description_mismatch\": false}, \"barcodes\": {\"type\": \"qza\", \"__current_case__\": 1, \"source\": {\"__class__\": \"ConnectedValue\"}, \"column\": {\"__class__\": \"ConnectedValue\"}}, \"seqs\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
-            "tool_version": "2023.5.0+q2galaxy.2023.5.0.2",
+            "tool_version": "2024.10.0+q2galaxy.2024.10.0",
             "type": "tool",
             "uuid": "23dd9199-b8aa-4daf-893f-1ca504ee0292",
             "when": null,
@@ -344,7 +357,7 @@
         },
         "8": {
             "annotation": "qiime2 demux summarize\nSummarize counts per sample.\n(Galaxy Version 2023.5.0+q2galaxy.2023.5.0.2)",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2023.5.0+q2galaxy.2023.5.0.2",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2024.10.0+q2galaxy.2024.10.0",
             "errors": null,
             "id": 8,
             "input_connections": {
@@ -375,15 +388,15 @@
                     "output_name": "visualization"
                 }
             },
-            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2023.5.0+q2galaxy.2023.5.0.2",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2024.10.0+q2galaxy.2024.10.0",
             "tool_shed_repository": {
-                "changeset_revision": "d8a9f74f1a6d",
+                "changeset_revision": "1a13e87462a0",
                 "name": "qiime2__demux__summarize",
                 "owner": "q2d2",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
             "tool_state": "{\"__q2galaxy__GUI__section__extra_opts__\": {\"n\": \"10000\"}, \"data\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
-            "tool_version": "2023.5.0+q2galaxy.2023.5.0.2",
+            "tool_version": "2024.10.0+q2galaxy.2024.10.0",
             "type": "tool",
             "uuid": "3b70c32e-3cd7-4444-b5e8-3ecf0916a14f",
             "when": null,
@@ -399,4 +412,4 @@
     "tags": [],
     "uuid": "951c418e-f57e-491d-af38-f2c44c6089ce",
     "version": 45
-}
\ No newline at end of file
+}
diff --git a/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ib-multiplexed-data-paired-end.ga b/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ib-multiplexed-data-paired-end.ga
index 08397c88d..1aac2accd 100644
--- a/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ib-multiplexed-data-paired-end.ga
+++ b/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ib-multiplexed-data-paired-end.ga
@@ -15,7 +15,7 @@
     ],
     "format-version": "0.1",
     "license": "MIT",
-    "release": "0.2",
+    "release": "0.3",
     "name": "QIIME2 Ib: multiplexed data (paired-end)",
     "steps": {
         "0": {
@@ -182,7 +182,7 @@
         },
         "6": {
             "annotation": "qiime2 tools import\nImport data into a QIIME 2 artifact",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2023.5.0+dist.h193f7cc9.3",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2024.10.0+dist.h3d8a7e27",
             "errors": null,
             "id": 6,
             "input_connections": {
@@ -226,15 +226,15 @@
                     "output_name": "imported_data"
                 }
             },
-            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2023.5.0+dist.h193f7cc9.3",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2024.10.0+dist.h3d8a7e27",
             "tool_shed_repository": {
-                "changeset_revision": "10447a4b0cc3",
+                "changeset_revision": "8a0db69428c7",
                 "name": "qiime2_core__tools__import",
                 "owner": "q2d2",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
-            "tool_state": "{\"import_root\": {\"type\": \"EMPPairedEndSequences\", \"__current_case__\": 4, \"__q2galaxy__GUI__cond__format__\": {\"format\": \"EMPPairedEndDirFmt\", \"__current_case__\": 1, \"import_forward\": {\"name\": \"forward.fastq.gz\", \"data\": {\"__class__\": \"ConnectedValue\"}}, \"import_reverse\": {\"name\": \"reverse.fastq.gz\", \"data\": {\"__class__\": \"ConnectedValue\"}}, \"import_barcodes\": {\"name\": \"barcodes.fastq.gz\", \"data\": {\"__class__\": \"ConnectedValue\"}}}}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
-            "tool_version": "2023.5.0+dist.h193f7cc9.3",
+            "tool_state": "{\"import_root\": {\"type\": \"EMPPairedEndSequences\", \"__current_case__\": 16, \"__q2galaxy__GUI__cond__format__\": {\"format\": \"EMPPairedEndDirFmt\", \"__current_case__\": 1, \"import_forward\": {\"name\": \"forward.fastq.gz\", \"data\": {\"__class__\": \"ConnectedValue\"}}, \"import_reverse\": {\"name\": \"reverse.fastq.gz\", \"data\": {\"__class__\": \"ConnectedValue\"}}, \"import_barcodes\": {\"name\": \"barcodes.fastq.gz\", \"data\": {\"__class__\": \"ConnectedValue\"}}}}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
+            "tool_version": "2024.10.0+dist.h3d8a7e27",
             "type": "tool",
             "uuid": "6a264e2d-ac11-498f-bdcf-c115221bbc91",
             "when": null,
@@ -242,7 +242,7 @@
         },
         "7": {
             "annotation": "Import metadata into a QIIME 2 artifact",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2023.5.0+dist.h193f7cc9.3",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2024.10.0+dist.h3d8a7e27",
             "errors": null,
             "id": 7,
             "input_connections": {
@@ -278,15 +278,15 @@
                     "output_name": "imported_data"
                 }
             },
-            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2023.5.0+dist.h193f7cc9.3",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2024.10.0+dist.h3d8a7e27",
             "tool_shed_repository": {
-                "changeset_revision": "10447a4b0cc3",
+                "changeset_revision": "8a0db69428c7",
                 "name": "qiime2_core__tools__import",
                 "owner": "q2d2",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
-            "tool_state": "{\"import_root\": {\"type\": \"ImmutableMetadata\", \"__current_case__\": 29, \"__q2galaxy__GUI__cond__format__\": {\"format\": \"ImmutableMetadataFormat\", \"__current_case__\": 0, \"import\": {\"name\": \"__q2galaxy__::literal::None\", \"data\": {\"__class__\": \"ConnectedValue\"}}}}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
-            "tool_version": "2023.5.0+dist.h193f7cc9.3",
+            "tool_state": "{\"import_root\": {\"type\": \"ImmutableMetadata\", \"__current_case__\": 58, \"__q2galaxy__GUI__cond__format__\": {\"format\": \"ImmutableMetadataFormat\", \"__current_case__\": 0, \"import\": {\"name\": \"__q2galaxy__::literal::None\", \"data\": {\"__class__\": \"ConnectedValue\"}}}}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
+            "tool_version": "2024.10.0+dist.h3d8a7e27",
             "type": "tool",
             "uuid": "b2974890-9277-4369-81af-4fa0ff80c5fe",
             "when": null,
@@ -294,7 +294,7 @@
         },
         "8": {
             "annotation": "qiime2 demux emp-paired\nDemultiplex paired-end sequence data generated with the EMP protocol.",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__emp_paired/qiime2__demux__emp_paired/2023.5.0+q2galaxy.2023.5.0.2",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__emp_paired/qiime2__demux__emp_paired/2024.10.0+q2galaxy.2024.10.0",
             "errors": null,
             "id": 8,
             "input_connections": {
@@ -315,7 +315,20 @@
                     "output_name": "imported_data"
                 }
             },
-            "inputs": [],
+            "inputs": [
+                {
+                    "description": "runtime parameter for tool qiime2 demux emp-paired",
+                    "name": "__q2galaxy__GUI__section__extra_opts__"
+                },
+                {
+                    "description": "runtime parameter for tool qiime2 demux emp-paired",
+                    "name": "barcodes"
+                },
+                {
+                    "description": "runtime parameter for tool qiime2 demux emp-paired",
+                    "name": "barcodes"
+                }
+            ],
             "label": "Demultiplex paired-end sequences",
             "name": "qiime2 demux emp-paired",
             "outputs": [
@@ -353,15 +366,15 @@
                     "output_name": "per_sample_sequences"
                 }
             },
-            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__emp_paired/qiime2__demux__emp_paired/2023.5.0+q2galaxy.2023.5.0.2",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__emp_paired/qiime2__demux__emp_paired/2024.10.0+q2galaxy.2024.10.0",
             "tool_shed_repository": {
-                "changeset_revision": "551e9187951c",
+                "changeset_revision": "8edb4dc16d6e",
                 "name": "qiime2__demux__emp_paired",
                 "owner": "q2d2",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
             "tool_state": "{\"__q2galaxy__GUI__section__extra_opts__\": {\"golay_error_correction\": true, \"rev_comp_barcodes\": false, \"rev_comp_mapping_barcodes\": {\"__class__\": \"ConnectedValue\"}, \"ignore_description_mismatch\": false}, \"barcodes\": {\"type\": \"qza\", \"__current_case__\": 1, \"source\": {\"__class__\": \"ConnectedValue\"}, \"column\": {\"__class__\": \"ConnectedValue\"}}, \"seqs\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
-            "tool_version": "2023.5.0+q2galaxy.2023.5.0.2",
+            "tool_version": "2024.10.0+q2galaxy.2024.10.0",
             "type": "tool",
             "uuid": "e3395c76-e4fc-44f4-a944-2fb25f5d99fb",
             "when": null,
@@ -375,7 +388,7 @@
         },
         "9": {
             "annotation": "qiime2 demux summarize\nSummarize counts per sample.\n(Galaxy Version 2023.5.0+q2galaxy.2023.5.0.2)",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2023.5.0+q2galaxy.2023.5.0.2",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2024.10.0+q2galaxy.2024.10.0",
             "errors": null,
             "id": 9,
             "input_connections": {
@@ -406,15 +419,15 @@
                     "output_name": "visualization"
                 }
             },
-            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2023.5.0+q2galaxy.2023.5.0.2",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2024.10.0+q2galaxy.2024.10.0",
             "tool_shed_repository": {
-                "changeset_revision": "d8a9f74f1a6d",
+                "changeset_revision": "1a13e87462a0",
                 "name": "qiime2__demux__summarize",
                 "owner": "q2d2",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
             "tool_state": "{\"__q2galaxy__GUI__section__extra_opts__\": {\"n\": \"10000\"}, \"data\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
-            "tool_version": "2023.5.0+q2galaxy.2023.5.0.2",
+            "tool_version": "2024.10.0+q2galaxy.2024.10.0",
             "type": "tool",
             "uuid": "cf48f270-6c6c-4fad-8c1d-2b02bb73ae49",
             "when": null,
diff --git a/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ic-demultiplexed-data-single-end.ga b/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ic-demultiplexed-data-single-end.ga
index 8dc79663d..62ab59f3c 100644
--- a/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ic-demultiplexed-data-single-end.ga
+++ b/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Ic-demultiplexed-data-single-end.ga
@@ -15,7 +15,7 @@
     ],
     "format-version": "0.1",
     "license": "MIT",
-    "release": "0.2",
+    "release": "0.3",
     "name": "QIIME2 Ic: Demultiplexed data (single-end)",
     "steps": {
         "0": {
@@ -150,7 +150,12 @@
                     "output_name": "output"
                 }
             },
-            "inputs": [],
+            "inputs": [
+                {
+                    "description": "runtime parameter for tool Relabel identifiers",
+                    "name": "how"
+                }
+            ],
             "label": "Relabel sequence files",
             "name": "Relabel identifiers",
             "outputs": [
@@ -174,7 +179,7 @@
         },
         "4": {
             "annotation": "qiime2 tools import\nImport data into a QIIME 2 artifact",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2023.5.0+dist.h193f7cc9.3",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2024.10.0+dist.h3d8a7e27",
             "errors": null,
             "id": 4,
             "input_connections": {
@@ -205,15 +210,15 @@
                     "output_name": "imported_data"
                 }
             },
-            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2023.5.0+dist.h193f7cc9.3",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2024.10.0+dist.h3d8a7e27",
             "tool_shed_repository": {
-                "changeset_revision": "10447a4b0cc3",
+                "changeset_revision": "8a0db69428c7",
                 "name": "qiime2_core__tools__import",
                 "owner": "q2d2",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
-            "tool_state": "{\"import_root\": {\"type\": \"SampleData__ob__SequencesWithQuality__cb__\", \"__current_case__\": 49, \"__q2galaxy__GUI__cond__format__\": {\"format\": \"CasavaOneEightLanelessPerSampleDirFmt\", \"__current_case__\": 0, \"import_sequences\": {\"__q2galaxy__GUI__cond__sequences__\": {\"__q2galaxy__GUI__select__picker__\": \"collection\", \"__current_case__\": 0, \"elements\": {\"__class__\": \"ConnectedValue\"}, \"__q2galaxy__GUI__cond__add_ext__\": {\"__q2galaxy__GUI__select__ext_pick__\": \"no\", \"__current_case__\": 1}}}}}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
-            "tool_version": "2023.5.0+dist.h193f7cc9.3",
+            "tool_state": "{\"import_root\": {\"type\": \"SampleData__ob__SequencesWithQuality__cb__\", \"__current_case__\": 103, \"__q2galaxy__GUI__cond__format__\": {\"format\": \"CasavaOneEightLanelessPerSampleDirFmt\", \"__current_case__\": 0, \"import_sequences\": {\"__q2galaxy__GUI__cond__sequences__\": {\"__q2galaxy__GUI__select__picker__\": \"collection\", \"__current_case__\": 0, \"elements\": {\"__class__\": \"ConnectedValue\"}, \"__q2galaxy__GUI__cond__add_ext__\": {\"__q2galaxy__GUI__select__ext_pick__\": \"no\", \"__current_case__\": 1}}}}}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
+            "tool_version": "2024.10.0+dist.h3d8a7e27",
             "type": "tool",
             "uuid": "6a264e2d-ac11-498f-bdcf-c115221bbc91",
             "when": null,
@@ -227,7 +232,7 @@
         },
         "5": {
             "annotation": "qiime2 demux summarize\nSummarize counts per sample.\n(Galaxy Version 2023.5.0+q2galaxy.2023.5.0.2)",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2023.5.0+q2galaxy.2023.5.0.2",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2024.10.0+q2galaxy.2024.10.0",
             "errors": null,
             "id": 5,
             "input_connections": {
@@ -258,15 +263,15 @@
                     "output_name": "visualization"
                 }
             },
-            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2023.5.0+q2galaxy.2023.5.0.2",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2024.10.0+q2galaxy.2024.10.0",
             "tool_shed_repository": {
-                "changeset_revision": "d8a9f74f1a6d",
+                "changeset_revision": "1a13e87462a0",
                 "name": "qiime2__demux__summarize",
                 "owner": "q2d2",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
             "tool_state": "{\"__q2galaxy__GUI__section__extra_opts__\": {\"n\": \"10000\"}, \"data\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
-            "tool_version": "2023.5.0+q2galaxy.2023.5.0.2",
+            "tool_version": "2024.10.0+q2galaxy.2024.10.0",
             "type": "tool",
             "uuid": "cf48f270-6c6c-4fad-8c1d-2b02bb73ae49",
             "when": null,
@@ -282,4 +287,4 @@
     "tags": [],
     "uuid": "5a57f873-52f8-4c51-9e8d-e747d32d183a",
     "version": 1
-}
+}
\ No newline at end of file
diff --git a/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Id-demultiplexed-data-paired-end.ga b/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Id-demultiplexed-data-paired-end.ga
index 4898aa4a3..ecf59201e 100644
--- a/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Id-demultiplexed-data-paired-end.ga
+++ b/workflows/amplicon/qiime2/qiime2-I-import/QIIME2-Id-demultiplexed-data-paired-end.ga
@@ -14,7 +14,7 @@
         }
     ],
     "format-version": "0.1",
-    "release": "0.2",
+    "release": "0.3",
     "license": "MIT",
     "name": "QIIME2 Id: Demultiplexed data (paired-end)",
     "steps": {
@@ -138,7 +138,12 @@
                     "output_name": "output"
                 }
             },
-            "inputs": [],
+            "inputs": [
+                {
+                    "description": "runtime parameter for tool Relabel identifiers",
+                    "name": "how"
+                }
+            ],
             "label": "Relabel sequence files",
             "name": "Relabel identifiers",
             "outputs": [
@@ -162,7 +167,7 @@
         },
         "4": {
             "annotation": "qiime2 tools import\nImport data into a QIIME 2 artifact",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2023.5.0+dist.h193f7cc9.3",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2024.10.0+dist.h3d8a7e27",
             "errors": null,
             "id": 4,
             "input_connections": {
@@ -193,15 +198,15 @@
                     "output_name": "imported_data"
                 }
             },
-            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2023.5.0+dist.h193f7cc9.3",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2_core__tools__import/qiime2_core__tools__import/2024.10.0+dist.h3d8a7e27",
             "tool_shed_repository": {
-                "changeset_revision": "10447a4b0cc3",
+                "changeset_revision": "8a0db69428c7",
                 "name": "qiime2_core__tools__import",
                 "owner": "q2d2",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
-            "tool_state": "{\"import_root\": {\"type\": \"SampleData__ob__PairedEndSequencesWithQuality__cb__\", \"__current_case__\": 46, \"__q2galaxy__GUI__cond__format__\": {\"format\": \"CasavaOneEightLanelessPerSampleDirFmt\", \"__current_case__\": 0, \"import_sequences\": {\"__q2galaxy__GUI__cond__sequences__\": {\"__q2galaxy__GUI__select__picker__\": \"collection\", \"__current_case__\": 0, \"elements\": {\"__class__\": \"ConnectedValue\"}, \"__q2galaxy__GUI__cond__add_ext__\": {\"__q2galaxy__GUI__select__ext_pick__\": \"no\", \"__current_case__\": 1}}}}}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
-            "tool_version": "2023.5.0+dist.h193f7cc9.3",
+            "tool_state": "{\"import_root\": {\"type\": \"SampleData__ob__PairedEndSequencesWithQuality__cb__\", \"__current_case__\": 100, \"__q2galaxy__GUI__cond__format__\": {\"format\": \"CasavaOneEightLanelessPerSampleDirFmt\", \"__current_case__\": 0, \"import_sequences\": {\"__q2galaxy__GUI__cond__sequences__\": {\"__q2galaxy__GUI__select__picker__\": \"collection\", \"__current_case__\": 0, \"elements\": {\"__class__\": \"ConnectedValue\"}, \"__q2galaxy__GUI__cond__add_ext__\": {\"__q2galaxy__GUI__select__ext_pick__\": \"no\", \"__current_case__\": 1}}}}}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
+            "tool_version": "2024.10.0+dist.h3d8a7e27",
             "type": "tool",
             "uuid": "6a264e2d-ac11-498f-bdcf-c115221bbc91",
             "when": null,
@@ -215,7 +220,7 @@
         },
         "5": {
             "annotation": "qiime2 demux summarize\nSummarize counts per sample.\n(Galaxy Version 2023.5.0+q2galaxy.2023.5.0.2)",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2023.5.0+q2galaxy.2023.5.0.2",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2024.10.0+q2galaxy.2024.10.0",
             "errors": null,
             "id": 5,
             "input_connections": {
@@ -246,15 +251,15 @@
                     "output_name": "visualization"
                 }
             },
-            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2023.5.0+q2galaxy.2023.5.0.2",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/q2d2/qiime2__demux__summarize/qiime2__demux__summarize/2024.10.0+q2galaxy.2024.10.0",
             "tool_shed_repository": {
-                "changeset_revision": "d8a9f74f1a6d",
+                "changeset_revision": "1a13e87462a0",
                 "name": "qiime2__demux__summarize",
                 "owner": "q2d2",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
             "tool_state": "{\"__q2galaxy__GUI__section__extra_opts__\": {\"n\": \"10000\"}, \"data\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
-            "tool_version": "2023.5.0+q2galaxy.2023.5.0.2",
+            "tool_version": "2024.10.0+q2galaxy.2024.10.0",
             "type": "tool",
             "uuid": "cf48f270-6c6c-4fad-8c1d-2b02bb73ae49",
             "when": null,