diff test-data/predict_scratch/Genus_species.stats.json @ 0:b5ec3983deda draft

"planemo upload commit 9613152729099079c7465c3d5d42005ef22ca91e"

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/predict_scratch/Genus_species.stats.json	Thu Aug 26 06:57:03 2021 +0000
@@ -0,0 +1,119 @@
+{
+    "format": "annotation",
+    "command": "/home/abretaud/miniconda3/envs/__funannotate@1.8.7/bin/funannotate predict --input /tmp/tmpm833xrq1/files/e/1/c/dataset_e1c34c74-e579-4cab-b0ed-5ce938ce4e4b.dat --out output --database /home/abretaud/.planemo/planemo_tmp_yntx6ieu/test-data/funannotate_db --species Genus species --isolate  --strain  --organism other --ploidy 1 --SeqCenter CFMR --SeqAccession 12345 --name FUN_ --numbering 1 --p2g_pident 80 --p2g_prefilter diamond --min_training_models 3 --busco_seed_species fly --busco_db insecta --evm-partition-interval 1500 --min_intronlen 10 --max_intronlen 3000 --min_protlen 50 --repeat_filter overlap blast --cpus 1",
+    "organism": "Genus_species",
+    "software": {
+        "name": "funannotate",
+        "version": "1.8.7",
+        "date": "2021-07-21",
+        "resources": {
+            "merops": {
+                "type": "diamond",
+                "version": "12.0",
+                "date": "2017-10-04",
+                "num-records": "5009"
+            },
+            "uniprot": {
+                "type": "diamond",
+                "version": "2021_03",
+                "date": "2021-06-02",
+                "num-records": "565254"
+            },
+            "dbCAN": {
+                "type": "hmmer3",
+                "version": "9.0",
+                "date": "2020-08-04",
+                "num-records": "641"
+            },
+            "pfam": {
+                "type": "hmmer3",
+                "version": "34.0",
+                "date": "2021-03",
+                "num-records": "19179"
+            },
+            "repeats": {
+                "type": "diamond",
+                "version": "1.0",
+                "date": "2021-07-19",
+                "num-records": "11950"
+            },
+            "go": {
+                "type": "text",
+                "version": "2021-07-02",
+                "date": "2021-07-02",
+                "num-records": "47228"
+            },
+            "mibig": {
+                "type": "diamond",
+                "version": "1.4",
+                "date": "2021-07-19",
+                "num-records": "31023"
+            },
+            "interpro": {
+                "type": "xml",
+                "version": "86.0",
+                "date": "2021-06-03",
+                "num-records": "38913"
+            },
+            "busco_outgroups": {
+                "type": "outgroups",
+                "version": "1.0",
+                "date": "2021-07-19",
+                "num-records": "8"
+            },
+            "gene2product": {
+                "type": "text",
+                "version": "1.70",
+                "date": "2021-06-15",
+                "num-records": "34039"
+            }
+        }
+    },
+    "assembly": {
+        "num_contigs": 4,
+        "length": 227430,
+        "mean_length": 56857.5,
+        "N50": 215740,
+        "L50": 1,
+        "N90": 215740,
+        "L90": 1,
+        "GC_content": 42.86
+    },
+    "annotation": {
+        "genes": 16,
+        "common_name": 0,
+        "mRNA": 16,
+        "tRNA": 0,
+        "ncRNA": 0,
+        "rRNA": 0,
+        "avg_gene_length": 1660.69,
+        "transcript-level": {
+            "CDS_transcripts": 16,
+            "CDS_five_utr": 0,
+            "CDS_three_utr": 0,
+            "CDS_no_utr": 16,
+            "CDS_five_three_utr": 0,
+            "CDS_complete": 15,
+            "CDS_no-start": 0,
+            "CDS_no-stop": 1,
+            "CDS_no-start_no-stop": 0,
+            "total_exons": 42,
+            "total_cds_exons": 42,
+            "multiple_exon_transcript": 13,
+            "single_exon_transcript": 3,
+            "avg_exon_length": 402.36,
+            "avg_protein_length": 359.81,
+            "functional": {
+                "go_terms": 0,
+                "interproscan": 0,
+                "eggnog": 0,
+                "pfam": 0,
+                "cazyme": 0,
+                "merops": 0,
+                "busco": 0,
+                "secretion": 0
+            },
+            "pct_exon_overlap_protein_evidence": 11.9
+        }
+    }
+}
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