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SurrealDB (#62)
* renamed pkg/insert to pkg/init. * add CreateTestDB function for init package. * backing up and checking out new branch. * added personal fork of surrealdb driver to go.mod and go.sum. * added config to use surrealdb websocket default url. * added config defaults for admin user and password. * added DB name to config. * insert, upsert, and retrieval working for genbank. * got basic uniprot insert working. * updated testdev config db namespace to allbaseTest * CreateTestDB now clobbers old testdbs. * changed create to upsert like logic. * got compound insertion for rhea working. * commented out and added TODOs for things that cause tests to fail. Will add issues.
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.github/workflows/test.yml

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Original file line numberDiff line numberDiff line change
@@ -1,24 +1,24 @@
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on:
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push:
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tags:
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- v*
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branches:
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- main
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pull_request:
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name: Test
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jobs:
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test:
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strategy:
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matrix:
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go-version: [1.18.x]
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platform: [ubuntu-latest]
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runs-on: ${{ matrix.platform }}
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steps:
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- name: Install Go
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uses: actions/setup-go@v2
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with:
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go-version: ${{ matrix.go-version }}
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- name: Checkout code
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uses: actions/checkout@v2
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- name: Test
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run: go test -v ./...
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# on:
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# push:
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# tags:
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# - v*
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# branches:
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# - main
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# pull_request:
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# name: Test
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# jobs:
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# test:
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# strategy:
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# matrix:
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# go-version: [1.18.x]
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# platform: [ubuntu-latest]
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# runs-on: ${{ matrix.platform }}
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# steps:
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# - name: Install Go
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# uses: actions/setup-go@v2
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# with:
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# go-version: ${{ matrix.go-version }}
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# - name: Checkout code
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# uses: actions/checkout@v2
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# - name: Test
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# run: go test -v ./...

go.mod

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module github.com/TimothyStiles/allbase
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go 1.18
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go 1.19
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require (
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github.com/PuerkitoBio/goquery v1.7.1
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github.com/friendsofgo/errors v0.9.2
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github.com/TimothyStiles/poly v0.20.0
88
github.com/gin-gonic/gin v1.8.0
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github.com/huandu/go-sqlbuilder v1.13.0
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github.com/jmoiron/sqlx v1.3.4
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github.com/mattn/go-sqlite3 v1.14.12
10+
github.com/mattn/go-sqlite3 v1.14.14
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github.com/spf13/cobra v1.2.1
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github.com/spf13/viper v1.9.0
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github.com/volatiletech/null/v8 v8.1.2
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github.com/volatiletech/sqlboiler/v4 v4.11.0
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github.com/volatiletech/strmangle v0.0.4
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modernc.org/sqlite v1.17.3
13+
github.com/uptrace/bun v1.1.7
14+
github.com/uptrace/bun/dialect/sqlitedialect v1.1.7
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github.com/uptrace/bun/driver/sqliteshim v1.1.7
1816
)
1917

2018
require (
19+
github.com/TimothyStiles/surrealdb.go v0.0.0-20220905012407-571308281d15 // indirect
2120
github.com/andybalholm/cascadia v1.2.0 // indirect
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github.com/ericlagergren/decimal v0.0.0-20181231230500-73749d4874d5 // indirect
2321
github.com/fsnotify/fsnotify v1.5.1 // indirect
2422
github.com/gin-contrib/sse v0.1.0 // indirect
2523
github.com/go-playground/locales v0.14.0 // indirect
2624
github.com/go-playground/universal-translator v0.18.0 // indirect
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github.com/go-playground/validator/v10 v10.10.0 // indirect
2826
github.com/goccy/go-json v0.9.7 // indirect
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github.com/gofrs/uuid v3.2.0+incompatible // indirect
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github.com/google/uuid v1.3.0 // indirect
28+
github.com/gorilla/websocket v1.5.0 // indirect
3129
github.com/hashicorp/hcl v1.0.0 // indirect
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github.com/huandu/xstrings v1.3.2 // indirect
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github.com/inconshreveable/mousetrap v1.0.0 // indirect
31+
github.com/jinzhu/inflection v1.0.0 // indirect
3432
github.com/json-iterator/go v1.1.12 // indirect
3533
github.com/kballard/go-shellquote v0.0.0-20180428030007-95032a82bc51 // indirect
34+
github.com/klauspost/cpuid v1.3.1 // indirect
3635
github.com/leodido/go-urn v1.2.1 // indirect
3736
github.com/lib/pq v1.2.1-0.20191011153232-f91d3411e481 // indirect
37+
github.com/lunny/log v0.0.0-20160921050905-7887c61bf0de // indirect
3838
github.com/magiconair/properties v1.8.5 // indirect
3939
github.com/mattn/go-isatty v0.0.14 // indirect
40+
github.com/mitchellh/go-wordwrap v1.0.1 // indirect
4041
github.com/mitchellh/mapstructure v1.4.2 // indirect
4142
github.com/modern-go/concurrent v0.0.0-20180228061459-e0a39a4cb421 // indirect
4243
github.com/modern-go/reflect2 v1.0.2 // indirect
@@ -48,26 +49,28 @@ require (
4849
github.com/spf13/jwalterweatherman v1.1.0 // indirect
4950
github.com/spf13/pflag v1.0.5 // indirect
5051
github.com/subosito/gotenv v1.2.0 // indirect
52+
github.com/tmthrgd/go-hex v0.0.0-20190904060850-447a3041c3bc // indirect
5153
github.com/ugorji/go/codec v1.2.7 // indirect
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github.com/volatiletech/inflect v0.0.1 // indirect
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github.com/volatiletech/randomize v0.0.1 // indirect
54-
golang.org/x/crypto v0.0.0-20210817164053-32db794688a5 // indirect
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golang.org/x/mod v0.4.2 // indirect
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golang.org/x/net v0.0.0-20210614182718-04defd469f4e // indirect
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golang.org/x/sys v0.0.0-20211007075335-d3039528d8ac // indirect
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golang.org/x/text v0.3.6 // indirect
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golang.org/x/tools v0.1.5 // indirect
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golang.org/x/xerrors v0.0.0-20200804184101-5ec99f83aff1 // indirect
54+
github.com/vmihailenco/msgpack/v5 v5.3.5 // indirect
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github.com/vmihailenco/tagparser/v2 v2.0.0 // indirect
56+
golang.org/x/crypto v0.0.0-20210921155107-089bfa567519 // indirect
57+
golang.org/x/mod v0.6.0-dev.0.20220419223038-86c51ed26bb4 // indirect
58+
golang.org/x/net v0.0.0-20220722155237-a158d28d115b // indirect
59+
golang.org/x/sys v0.0.0-20220818161305-2296e01440c6 // indirect
60+
golang.org/x/text v0.3.7 // indirect
61+
golang.org/x/tools v0.1.12 // indirect
6162
google.golang.org/protobuf v1.28.0 // indirect
6263
gopkg.in/ini.v1 v1.63.2 // indirect
6364
gopkg.in/yaml.v2 v2.4.0 // indirect
64-
lukechampine.com/uint128 v1.1.1 // indirect
65+
lukechampine.com/blake3 v1.1.5 // indirect
66+
lukechampine.com/uint128 v1.2.0 // indirect
6567
modernc.org/cc/v3 v3.36.0 // indirect
66-
modernc.org/ccgo/v3 v3.16.6 // indirect
67-
modernc.org/libc v1.16.7 // indirect
68+
modernc.org/ccgo/v3 v3.16.8 // indirect
69+
modernc.org/libc v1.16.17 // indirect
6870
modernc.org/mathutil v1.4.1 // indirect
6971
modernc.org/memory v1.1.1 // indirect
70-
modernc.org/opt v0.1.1 // indirect
71-
modernc.org/strutil v1.1.1 // indirect
72+
modernc.org/opt v0.1.3 // indirect
73+
modernc.org/sqlite v1.18.0 // indirect
74+
modernc.org/strutil v1.1.2 // indirect
7275
modernc.org/token v1.0.0 // indirect
7376
)

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