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Original file line number | Diff line number | Diff line change |
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import RpcMethodType from '@jbrowse/core/pluggableElementTypes/RpcMethodType' | ||
import SerializableFilterChain from '@jbrowse/core/pluggableElementTypes/renderers/util/serializableFilterChain' | ||
import { getAdapter } from '@jbrowse/core/data_adapters/dataAdapterCache' | ||
import { RenderArgs } from '@jbrowse/core/rpc/coreRpcMethods' | ||
import { renameRegionsIfNeeded, Region } from '@jbrowse/core/util' | ||
import { RemoteAbortSignal } from '@jbrowse/core/rpc/remoteAbortSignals' | ||
import { AnyConfigurationModel } from '@jbrowse/core/configuration' | ||
|
||
export class MultiWiggleGetSources extends RpcMethodType { | ||
name = 'MultiWiggleGetSources' | ||
|
||
// eslint-disable-next-line @typescript-eslint/no-explicit-any | ||
async deserializeArguments(args: any, rpcDriverClassName: string) { | ||
const l = await super.deserializeArguments(args, rpcDriverClassName) | ||
return { | ||
...l, | ||
filters: args.filters | ||
? new SerializableFilterChain({ | ||
filters: args.filters, | ||
}) | ||
: undefined, | ||
} | ||
} | ||
|
||
async serializeArguments( | ||
args: RenderArgs & { | ||
signal?: AbortSignal | ||
statusCallback?: (arg: string) => void | ||
}, | ||
rpcDriverClassName: string, | ||
) { | ||
const pm = this.pluginManager | ||
const assemblyManager = pm.rootModel?.session?.assemblyManager | ||
if (!assemblyManager) { | ||
return args | ||
} | ||
|
||
const renamedArgs = await renameRegionsIfNeeded(assemblyManager, { | ||
...args, | ||
filters: args.filters?.toJSON().filters, | ||
}) | ||
|
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return super.serializeArguments(renamedArgs, rpcDriverClassName) | ||
} | ||
|
||
async execute( | ||
args: { | ||
adapterConfig: AnyConfigurationModel | ||
signal?: RemoteAbortSignal | ||
sessionId: string | ||
headers?: Record<string, string> | ||
regions: Region[] | ||
bpPerPx: number | ||
}, | ||
rpcDriverClassName: string, | ||
) { | ||
const pm = this.pluginManager | ||
const deserializedArgs = await this.deserializeArguments( | ||
args, | ||
rpcDriverClassName, | ||
) | ||
const { regions, adapterConfig, sessionId } = deserializedArgs | ||
const { dataAdapter } = await getAdapter(pm, sessionId, adapterConfig) | ||
|
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// @ts-expect-error | ||
return dataAdapter.getSources(regions, deserializedArgs) | ||
} | ||
} |
44 changes: 44 additions & 0 deletions
44
plugins/wiggle/src/WiggleRPC/WiggleGetGlobalQuantitativeStats.ts
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import RpcMethodType from '@jbrowse/core/pluggableElementTypes/RpcMethodType' | ||
import SerializableFilterChain from '@jbrowse/core/pluggableElementTypes/renderers/util/serializableFilterChain' | ||
import { getAdapter } from '@jbrowse/core/data_adapters/dataAdapterCache' | ||
import { RemoteAbortSignal } from '@jbrowse/core/rpc/remoteAbortSignals' | ||
import { QuantitativeStats } from '@jbrowse/core/util/stats' | ||
import { AnyConfigurationModel } from '@jbrowse/core/configuration' | ||
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export class WiggleGetGlobalQuantitativeStats extends RpcMethodType { | ||
name = 'WiggleGetGlobalQuantitativeStats' | ||
|
||
// eslint-disable-next-line @typescript-eslint/no-explicit-any | ||
async deserializeArguments(args: any, rpcDriverClassName: string) { | ||
const l = await super.deserializeArguments(args, rpcDriverClassName) | ||
return { | ||
...l, | ||
filters: args.filters | ||
? new SerializableFilterChain({ | ||
filters: args.filters, | ||
}) | ||
: undefined, | ||
} | ||
} | ||
|
||
async execute( | ||
args: { | ||
adapterConfig: AnyConfigurationModel | ||
signal?: RemoteAbortSignal | ||
headers?: Record<string, string> | ||
sessionId: string | ||
}, | ||
rpcDriverClassName: string, | ||
): Promise<QuantitativeStats> { | ||
const pm = this.pluginManager | ||
const deserializedArgs = await this.deserializeArguments( | ||
args, | ||
rpcDriverClassName, | ||
) | ||
const { adapterConfig, sessionId } = deserializedArgs | ||
const { dataAdapter } = await getAdapter(pm, sessionId, adapterConfig) | ||
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// @ts-expect-error | ||
return dataAdapter.getGlobalStats(deserializedArgs) | ||
} | ||
} |
73 changes: 73 additions & 0 deletions
73
plugins/wiggle/src/WiggleRPC/WiggleGetMultiRegionQuantitativeStats.ts
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Original file line number | Diff line number | Diff line change |
---|---|---|
@@ -0,0 +1,73 @@ | ||
import RpcMethodType from '@jbrowse/core/pluggableElementTypes/RpcMethodType' | ||
import SerializableFilterChain from '@jbrowse/core/pluggableElementTypes/renderers/util/serializableFilterChain' | ||
import { RenderArgs } from '@jbrowse/core/rpc/coreRpcMethods' | ||
import { getAdapter } from '@jbrowse/core/data_adapters/dataAdapterCache' | ||
import { RemoteAbortSignal } from '@jbrowse/core/rpc/remoteAbortSignals' | ||
import { Region, renameRegionsIfNeeded } from '@jbrowse/core/util' | ||
import { BaseFeatureDataAdapter } from '@jbrowse/core/data_adapters/BaseAdapter' | ||
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export class WiggleGetMultiRegionQuantitativeStats extends RpcMethodType { | ||
name = 'WiggleGetMultiRegionQuantitativeStats' | ||
|
||
// eslint-disable-next-line @typescript-eslint/no-explicit-any | ||
async deserializeArguments(args: any, rpcDriverClassName: string) { | ||
const l = await super.deserializeArguments(args, rpcDriverClassName) | ||
return { | ||
...l, | ||
filters: args.filters | ||
? new SerializableFilterChain({ | ||
filters: args.filters, | ||
}) | ||
: undefined, | ||
} | ||
} | ||
|
||
async serializeArguments( | ||
args: RenderArgs & { | ||
signal?: AbortSignal | ||
statusCallback?: (arg: string) => void | ||
}, | ||
rpcDriverClassName: string, | ||
) { | ||
const pm = this.pluginManager | ||
const assemblyManager = pm.rootModel?.session?.assemblyManager | ||
if (!assemblyManager) { | ||
return args | ||
} | ||
|
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const renamedArgs = await renameRegionsIfNeeded(assemblyManager, { | ||
...args, | ||
filters: args.filters?.toJSON().filters, | ||
}) | ||
|
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return super.serializeArguments(renamedArgs, rpcDriverClassName) | ||
} | ||
|
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async execute( | ||
args: { | ||
adapterConfig: {} | ||
signal?: RemoteAbortSignal | ||
sessionId: string | ||
headers?: Record<string, string> | ||
regions: Region[] | ||
bpPerPx: number | ||
}, | ||
rpcDriverClassName: string, | ||
) { | ||
const pm = this.pluginManager | ||
const deserializedArgs = await this.deserializeArguments( | ||
args, | ||
rpcDriverClassName, | ||
) | ||
const { regions, adapterConfig, sessionId } = deserializedArgs | ||
const { dataAdapter } = await getAdapter(pm, sessionId, adapterConfig) | ||
|
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if (dataAdapter instanceof BaseFeatureDataAdapter) { | ||
return dataAdapter.getMultiRegionQuantitativeStats( | ||
regions, | ||
deserializedArgs, | ||
) | ||
} | ||
throw new Error('Data adapter not found') | ||
} | ||
} |
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