diff --git a/workflows/read-preprocessing/short-read-qc-trimming/CHANGELOG.md b/workflows/read-preprocessing/short-read-qc-trimming/CHANGELOG.md
index 8bf31390fb..52f8b7e388 100644
--- a/workflows/read-preprocessing/short-read-qc-trimming/CHANGELOG.md
+++ b/workflows/read-preprocessing/short-read-qc-trimming/CHANGELOG.md
@@ -1,5 +1,11 @@
 # Changelog
 
+## [0.4] - 2026-04-20
+
+### Automatic update
+- `toolshed.g2.bx.psu.edu/repos/iuc/fastp/fastp/1.1.0+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/fastp/fastp/1.3.2+galaxy0`
+- `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.33+galaxy0` was updated to `toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.33+galaxy3`
+
 ## [0.3] - 2026-01-30
 
 ### Automatic update
diff --git a/workflows/read-preprocessing/short-read-qc-trimming/short-read-quality-control-and-trimming.ga b/workflows/read-preprocessing/short-read-qc-trimming/short-read-quality-control-and-trimming.ga
index d750aacd60..a92b11312f 100644
--- a/workflows/read-preprocessing/short-read-qc-trimming/short-read-quality-control-and-trimming.ga
+++ b/workflows/read-preprocessing/short-read-qc-trimming/short-read-quality-control-and-trimming.ga
@@ -159,7 +159,7 @@
         },
         "5": {
             "annotation": "Quality control and trimming of the raw reads",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/fastp/fastp/1.1.0+galaxy0",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/fastp/fastp/1.3.2+galaxy0",
             "errors": null,
             "id": 5,
             "input_connections": {
@@ -238,16 +238,16 @@
                     "output_name": "output_paired_coll"
                 }
             },
-            "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/fastp/fastp/1.1.0+galaxy0",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/fastp/fastp/1.3.2+galaxy0",
             "tool_shed_repository": {
-                "changeset_revision": "ff33957bf802",
+                "changeset_revision": "241decaaff3e",
                 "name": "fastp",
                 "owner": "iuc",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
             "tool_state": "{\"duplicated_reads\": {\"handling_options\": {\"eval_dups\": \"--dont_eval_duplication\", \"__current_case__\": 0}}, \"filter_options\": {\"quality_filtering_options\": {\"disable_quality_filtering\": false, \"qualified_quality_phred\": {\"__class__\": \"ConnectedValue\"}, \"unqualified_percent_limit\": null, \"n_base_limit\": null}, \"length_filtering_options\": {\"disable_length_filtering\": false, \"length_required\": {\"__class__\": \"ConnectedValue\"}, \"length_limit\": null}, \"low_complexity_filter\": {\"enable_low_complexity_filter\": false, \"complexity_threshold\": null}}, \"output_options\": {\"report_html\": true, \"report_json\": true}, \"overrepresented_sequence_analysis\": {\"overrepresentation_analysis\": false, \"overrepresentation_sampling\": null}, \"read_mod_options\": {\"polyg_tail_trimming\": {\"trimming_select\": \"\", \"__current_case__\": 1, \"poly_g_min_len\": null}, \"polyx_tail_trimming\": {\"polyx_trimming_select\": \"\", \"__current_case__\": 1}, \"umi_processing\": {\"umi\": false, \"umi_loc\": null, \"umi_len\": null, \"umi_prefix\": null}, \"cutting_by_quality_options\": {\"cut_front_select\": {\"cut_front\": \"\", \"__current_case__\": 1}, \"cut_tail_select\": {\"cut_tail\": \"\", \"__current_case__\": 1}, \"cut_right_select\": {\"cut_right\": \"\", \"__current_case__\": 1}}, \"base_correction_options\": {\"correction\": false}}, \"single_paired\": {\"single_paired_selector\": \"paired_collection\", \"__current_case__\": 1, \"paired_input\": {\"__class__\": \"ConnectedValue\"}, \"merge_reads\": {\"merge\": \"\", \"__current_case__\": 1}, \"adapter_trimming_options\": {\"disable_adapter_trimming\": false, \"adapter_sequence1\": {\"__class__\": \"ConnectedValue\"}, \"adapter_sequence2\": {\"__class__\": \"ConnectedValue\"}, \"detect_adapter_for_pe\": false}, \"global_trimming_options\": {\"trim_front1\": null, \"trim_tail1\": null, \"trim_front2\": null, \"trim_tail2\": null}}, \"__page__\": 0, \"__rerun_remap_job_id__\": null}",
             "tool_uuid": null,
-            "tool_version": "1.1.0+galaxy0",
+            "tool_version": "1.3.2+galaxy0",
             "type": "tool",
             "uuid": "e69bddb6-7447-4f42-b721-233bbe9c4d71",
             "when": null,
@@ -266,7 +266,7 @@
         },
         "6": {
             "annotation": "Aggregation of the quality controls for all samples",
-            "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.33+galaxy0",
+            "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.33+galaxy3",
             "errors": null,
             "id": 6,
             "input_connections": {
@@ -311,16 +311,16 @@
                     "output_name": "html_report"
                 }
             },
-            "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.33+galaxy0",
+            "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/multiqc/multiqc/1.33+galaxy3",
             "tool_shed_repository": {
-                "changeset_revision": "26ee5e11ecbe",
+                "changeset_revision": "862943c10425",
                 "name": "multiqc",
                 "owner": "iuc",
                 "tool_shed": "toolshed.g2.bx.psu.edu"
             },
-            "tool_state": "{\"comment\": \"\", \"export\": false, \"flat\": false, \"image_content_input\": {\"__class__\": \"RuntimeValue\"}, \"png_plots\": false, \"results\": [{\"__index__\": 0, \"software_cond\": {\"software\": \"fastp\", \"__current_case__\": 7, \"input\": {\"__class__\": \"ConnectedValue\"}}}], \"title\": \"\", \"__page__\": 0, \"__rerun_remap_job_id__\": null}",
+            "tool_state": "{\"comment\": \"\", \"export\": false, \"flat\": false, \"image_content_input\": {\"__class__\": \"RuntimeValue\"}, \"png_plots\": false, \"results\": [{\"__index__\": 0, \"software_cond\": {\"software\": \"fastp\", \"__current_case__\": 8, \"input\": {\"__class__\": \"ConnectedValue\"}}}], \"title\": \"\", \"__page__\": 0, \"__rerun_remap_job_id__\": null}",
             "tool_uuid": null,
-            "tool_version": "1.33+galaxy0",
+            "tool_version": "1.33+galaxy3",
             "type": "tool",
             "uuid": "cce48d5d-b02d-435e-b466-d4f3eb8b7529",
             "when": null,
@@ -341,7 +341,7 @@
         "eukaryotes",
         "archea"
     ],
-    "uuid": "416f8154-eaa2-4583-b6b0-c80011ea84f8",
+    "uuid": "cbd138b6-344b-4fe4-9b62-9892b9049266",
     "version": 1,
-    "release": "0.3"
+    "release": "0.4"
 }
\ No newline at end of file