adjust output_schema for #256

pepatac_output_schema.yaml

@@ -24,6 +24,242 @@ properties:
       summits_bed:
         type: string
         description: "Peak summit file"
+      File_mb:
+        type: number
+        description: "size of file"
+      Read_type:
+        type: string
+        description: "read_type"
+      Genome:
+        type: string
+        description: "e.g. hg38"
+      Raw_reads:
+        type: string
+        description: "raw reads"
+      Fastq_reads:
+        type: number
+        description: "fastq_reads"
+      Trimmed_reads:
+        type: number
+        description: "trimmed_reads"
+      Trimmed_loss_rate:
+        type: number
+        description: "trimmed loss rate"
+      FastQC report r1:
+        title: "FastQC report r1"
+        description: "FastQC report r1"
+        type: object
+        object_type: file
+        properties:
+          path:
+            type: string
+          thumbnail_path:
+            type: string
+          title:
+            type: string
+        required:
+          - path
+          - thumbnail_path
+          - title
+      FastQC report r2:
+        title: "FastQC report r2"
+        description: "FastQC report r2"
+        type: object
+        object_type: file
+        properties:
+          path:
+            type: string
+          thumbnail_path:
+            type: string
+          title:
+            type: string
+        required:
+          - path
+          - thumbnail_path
+          - title
+      Aligned_reads_rCRSd:
+        type: number
+        description: "Aligned_reads_rCRSd"
+      Alignment_rate_rCRSd:
+        type: number
+        description: "Alignment_rate_rCRSd"
+      Mapped_reads:
+        type: string
+        description: "mapped_reads"
+      QC_filtered_reads:
+        type: number
+        description: "QC_filtered_reads"
+      Aligned_reads:
+        type: string
+        description: "Aligned_reads"
+      Alignment_rate:
+        type: number
+        description: "Alignment_rate"
+      Total_efficiency:
+        type: number
+        description: "Total_efficiency"
+      Mitochondrial_reads:
+        type: number
+        description: "Mitochondrial_reads"
+      NRF:
+        type: number
+        description: "NRF"
+      PBC1:
+        type: number
+        description: "PBC1"
+      PBC2:
+        type: number
+        description: "PBC1"
+      Unmapped_reads:
+        type: number
+        description: "Unmapped_reads"
+      Duplicate_reads:
+        type: string
+        description: "Duplicate_reads"
+      Dedup_aligned_reads:
+        type: number
+        description: "Dedup_aligned_reads"
+      Dedup_alignment_rate:
+        type: number
+        description: "Dedup_alignment_rate"
+      Dedup_total_efficiency:
+        type: number
+        description: "Dedup_total_efficiency"
+      NFR_frac:
+        type: number
+        description: "NFR_frac"
+      mono_frac:
+        type: number
+        description: "mono_frac"
+      di_frac:
+        type: number
+        description: "di_frac"
+      tri_frac:
+        type: number
+        description: "tri_frac"
+      poly_frac:
+        type: number
+        description: "poly_frac"
+      Read_length:
+        type: number
+        description: "Read_length"
+      Genome_size:
+        type: number
+        description: "Read_length"
+      Frac_exp_unique_at_10M:
+        type: number
+        description: "Frac_exp_unique_at_10M"
+      TSS_score:
+        type: number
+        description: "TSS_score"
+      Fragment distribution:
+        title: "Fragment distribution"
+        description: "Fragment distribution"
+        type: object
+        object_type: image
+        properties:
+          path:
+            type: string
+          thumbnail_path:
+            type: string
+          title:
+            type: string
+        required:
+          - path
+          - thumbnail_path
+          - title
+      Peak_count:
+        type: number
+        description: "Peak_count"
+      FRiP:
+        type: number
+        description: "FRiP"
+      Peak chromosome distribution:
+        title: "Peak chromosome distribution"
+        description: "Peak chromosome distribution"
+        type: object
+        object_type: image
+        properties:
+          path:
+            type: string
+          thumbnail_path:
+            type: string
+          title:
+            type: string
+        required:
+          - path
+          - thumbnail_path
+          - title
+      TSS distance distribution:
+        title: "TSS distance distribution"
+        description: "TSS distance distribution"
+        type: object
+        object_type: image
+        properties:
+          path:
+            type: string
+          thumbnail_path:
+            type: string
+          title:
+            type: string
+        required:
+          - path
+          - thumbnail_path
+          - title
+      Peak partition distribution:
+        title: "Peak partition distribution"
+        description: "Peak partition distribution"
+        type: object
+        object_type: image
+        properties:
+          path:
+            type: string
+          thumbnail_path:
+            type: string
+          title:
+            type: string
+        required:
+          - path
+          - thumbnail_path
+          - title
+      cFRiF:
+        title: "cFRiF"
+        description: "cFRiF"
+        type: object
+        object_type: image
+        properties:
+          path:
+            type: string
+          thumbnail_path:
+            type: string
+          title:
+            type: string
+        required:
+          - path
+          - thumbnail_path
+          - title
+      FRiF:
+        title: "FRiF"
+        description: "FRiF"
+        type: object
+        object_type: image
+        properties:
+          path:
+            type: string
+          thumbnail_path:
+            type: string
+          title:
+            type: string
+        required:
+          - path
+          - thumbnail_path
+          - title
+      Time:
+        type: string
+        description: "time"
+      Success:
+        type: string
+        description: "success"
   project:
     type: object
     properties:
@@ -59,7 +295,7 @@ properties:
           - path
           - thumbnail_path
           - title
-      tss_file:
+      TSS enrichment:
         title: "TSS enrichment file"
         description: "Plots TSS scores for each sample."
         type: object
@@ -75,7 +311,7 @@ properties:
           - path
           - thumbnail_path
           - title
-      library_complexity_file:
+      Library complexity:
         title: "Library complexity file"
         description: "Plots each sample's library complexity on a single plot."
         type: object