1 | #! /bin/bash
|
2 |
|
3 |
|
4 |
|
5 |
|
6 |
|
7 |
|
8 |
|
9 |
|
10 | echo $'1234\n1235\n' |\
|
11 | ./bin/bridgedb xrefs -f "tsv" \
|
12 | "Homo sapiens" "Entrez Gene" 0 \
|
13 | uniprot
|
14 |
|
15 | echo $'1234\n1235\n' |\
|
16 | ./bin/bridgedb xrefs -f "tsv" \
|
17 | "Homo sapiens" "Entrez Gene" 0 \
|
18 | ensembl uniprot
|
19 |
|
20 | ./bin/bridgedb xrefs -f "tsv" \
|
21 | "Homo sapiens" "Entrez Gene" 0 \
|
22 | <<< $'1234\n1235\n'
|
23 |
|
24 | echo $'1234\n1235\n' |\
|
25 | ./bin/bridgedb xrefs -f "tsv" \
|
26 | "Homo sapiens" "Entrez Gene" 0
|
27 |
|
28 | echo $'1234\n1235\n' | \
|
29 | ./bin/bridgedb xrefs -f "tsv" -i 1 \
|
30 | "Homo sapiens" "Entrez Gene" 0 \
|
31 | ensembl
|
32 |
|
33 | echo $'1234\n1235\n' | \
|
34 | ./bin/bridgedb xrefs -f "tsv" -i 0 \
|
35 | "Homo sapiens" "Entrez Gene" 0 \
|
36 | ensembl
|
37 |
|
38 | ./bin/bridgedb xrefs -f "csv" \
|
39 | "Homo sapiens" "Entrez Gene" 0 \
|
40 | < test/xrefIdentifiers.csv
|
41 |
|
42 |
|
43 |
|
44 | echo $'Entrez Gene\t1234\nEntrez Gene\t1235\n' | \
|
45 | ./bin/bridgedb xrefs -f "tsv" \
|
46 | "Homo sapiens" 0 1 \
|
47 | ensembl
|
48 |
|
49 | echo $'Entrez Gene\t1234\nEntrez Gene\t1235\n' | \
|
50 | ./bin/bridgedb xrefs -f "tsv" -i 2 \
|
51 | "Homo sapiens" 0 1
|
52 |
|
53 | echo $'Entrez Gene\t1234\nEntrez Gene\t1235\n' | \
|
54 | ./bin/bridgedb xrefs -f "tsv" -i 2 \
|
55 | "Homo sapiens" 0 1 \
|
56 | ensembl uniprot
|
57 |
|
58 | echo $'Entrez Gene\t1234\nEntrez Gene\t1235\n' | \
|
59 | ./bin/bridgedb xrefs -f "tsv" -i 1 \
|
60 | "Homo sapiens" 0 1 \
|
61 | ensembl
|
62 |
|
63 | ./bin/bridgedb xrefs -f "tsv" \
|
64 | "Homo sapiens" "Entrez Gene" 0 \
|
65 | <<< $'1234\n1235\n'
|
66 |
|
67 | echo $'gene\n1234\n1235\n' |\
|
68 | ./bin/bridgedb xrefs -f "tsv" \
|
69 | --headers=true \
|
70 | "Homo sapiens" "Entrez Gene" "gene"
|
71 |
|
72 | ./bin/bridgedb xrefs -f "tsv" \
|
73 | "Homo sapiens" "Entrez Gene" 0 \
|
74 | < test/xrefIdentifiers.csv
|
75 |
|
76 | ./bin/bridgedb xrefs -f "csv" \
|
77 | "Homo sapiens" 0 1 \
|
78 | < test/xrefDataSourcesAndIdentifiers.csv
|
79 |
|
80 | ./bin/bridgedb xrefs -f "csv" \
|
81 | "Homo sapiens" "Entrez Gene" 1 \
|
82 | < test/xrefIdentifiersInSecondColumn.csv
|
83 |
|
84 | ./bin/bridgedb xrefs -f "tsv" --headers=true -i 3 \
|
85 | "Homo sapiens" "Entrez Gene" "Gene" \
|
86 | ensembl \
|
87 | < test/RefSeqSample.tsv
|