fasttree

zatsu_cwl_bioinformatics/5_fasttree_docker.cwl

@@ -0,0 +1,27 @@
+#!/usr/bin/env cwl-runner
+# Generated from: fasttree -nt clustalo_result.fasta > fasttree_result.nwk
+class: CommandLineTool
+cwlVersion: v1.0
+baseCommand: fasttree
+arguments:
+  - -nt
+  - $(inputs.nt)
+inputs:
+  - id: nt
+    type: File
+    default:
+      class: File
+      location: clustalo_result.fasta
+outputs:
+  - id: all-for-debugging
+    type:
+      type: array
+      items: [File, Directory]
+    outputBinding:
+      glob: "*"
+  - id: out
+    type: stdout
+stdout: fasttree_result.nwk
+hints:
+  - class: DockerRequirement
+    dockerPull: biocontainers/fasttree:v2.1.10-2-deb_cv1

zatsu_cwl_bioinformatics/fasttree_result.nwk

@@ -0,0 +1 @@
+(sp|O14793|GDF8_HUMAN:0.000000005,(sp|O18828|GDF8_PAPHA:0.000000005,(sp|O18831|GDF8_PIG:0.000000005,(sp|Q6UKZ8|GDF8_CANLF:0.027244279,(sp|Q5USV7|GDF8_AEPME:0.000000005,sp|O18830|GDF8_SHEEP:0.000000005)0.849:0.028248549)0.221:0.000000005)0.488:0.000000006)0.000:0.000000005,((sp|A1C2U3|GDF8_PONPY:0.0,sp|A1C2V0|GDF8_PANTR:0.0,sp|A1C2U7|GDF8_PANPA:0.0,sp|A1C2U6|GDF8_MACMU:0.0,sp|Q95J86|GDF8_MACFA:0.0,sp|A1C2V5|GDF8_GORGO:0.0):0.000000005,(sp|Q8HY52|GDF8_LEPCA:0.000000005,((sp|Q9GM97|GDF8_HORSE:0.000000005,sp|Q5USV5|GDF8_ANTAM:0.013590135)0.846:0.013409418,(sp|Q5USW0|GDF8_TAUDE:0.000000005,((sp|O18836|GDF8_BOVIN:0.0,sp|Q5RZV4|GDF8_BOSIN:0.0,sp|Q5USW1|GDF8_BOSGA:0.0):0.000000005,sp|Q6X5V1|GDF8_BUBBU:0.013060374)0.854:0.013060276)0.972:0.000000005)0.859:0.000000005)0.493:0.000000005)0.000:0.000000005);