@fnndsc/brasa 0.56.1 → 0.56.3

package/dist/builtins/fs/pull.js

@@ -14,13 +14,14 @@ import chalk from 'chalk';
 import { seriesStorage_resolve } from '@fnndsc/cumin';
 import { feed_create, retrieveTask_make, retrieveTasks_fire, retrieveTasks_skipComplete, retrieve_fireAndWatch, retrieve_confirmLoop, retrieveProgress_classify, } from '@fnndsc/salsa';
 import { session } from '../../session/index.js';
-import { args_checkHasHelpFlag, help_render } from '../help.js';
 import { pacsQuery_createAndWait, queryExpr_parse } from '../net/query.js';
 import { spinner } from '../../lib/spinner.js';
 import { path_resolve } from '../utils.js';
 import { pacs_seriesCollect, pacsServer_resolve, } from '../net/pacsUtils.js';
 import { builtin_cubepath } from '../net/cubepath.js';
-import { pullArgs_parse } from './pull.args.js';
+import { PULL_GRAMMAR } from './pull.args.js';
+import { command_declare } from '../../core/commandDeclaration.js';
+import { declaredCommand_run } from '../../core/commandParse.js';
 import { sink_get, sink_dataLine, sink_errLine } from '../../core/sink.js';
 import { repl_confirm } from '../../core/question.js';
 import { jobletCurrent_get } from '../../core/jobletScope.js';
@@ -215,6 +216,42 @@ async function paths_resolveToVfs(paths, pacsserver) {
     }
     return { paths: resolvedPaths, complete };
 }
+/**
+ * Says what became of the series a pull ended without confirming, by why
+ * each ended: a line per series, its reason under it, then one line for all
+ * of a cause with the next step.
+ *
+ * The two causes call for different words and different next steps. A
+ * series the PACS sent nothing of, while CUBE has none of it, reads
+ * `NOT RECEIVED`, as its row in ARGUS does: nothing was seen to come, and
+ * the way on is to ask again. A series whose watch on CUBE's progress
+ * dropped reads `WATCH ENDED`: its files may still be landing, and
+ * `pacs status` says whether they did.
+ *
+ * @param unconfirmed - The series that ended unconfirmed.
+ */
+function unconfirmedLines_print(unconfirmed) {
+    const silent = unconfirmed.filter((t) => t.endCause === 'pacsSilent');
+    const lost = unconfirmed.filter((t) => t.endCause !== 'pacsSilent');
+    const line_print = (t, words) => {
+        sink_dataLine(chalk.gray(`  ? ${t.label} [${words}]`));
+        if (t.reason !== undefined)
+            sink_dataLine(chalk.gray(`      ${t.reason}`));
+    };
+    for (const t of silent)
+        line_print(t, 'NOT RECEIVED — re-run pull, or check with: pacs status');
+    for (const t of lost)
+        line_print(t, 'WATCH ENDED — may still be arriving; check with: pacs status');
+    if (silent.length > 0) {
+        const them = silent.length === 1 ? 'it' : 'them';
+        sink_dataLine(chalk.gray(`  The PACS sent nothing of ${silent.length} series, and CUBE has none of ${them}. ` +
+            `Re-run pull to ask for ${them} again, or check with: pacs status.`));
+    }
+    if (lost.length > 0) {
+        sink_dataLine(chalk.gray(`  The watch on CUBE's progress dropped before ${lost.length} series finished; ` +
+            `${lost.length === 1 ? 'its' : 'their'} files may still arrive. Check with: pacs status.`));
+    }
+}
 /**
  * Prints the pull summary and sets a non-zero exit code on any failure.
  *
@@ -247,15 +284,7 @@ function pullSummary_print(allTasks, totalFiringErrors) {
                     sink_dataLine(chalk.yellow(`      ${f.reason}`));
             }
         }
-        for (const u of unconfirmed) {
-            sink_dataLine(chalk.gray(`  ? ${u.label} [WATCH ENDED — may still be arriving; check with: pacs status]`));
-            if (u.reason !== undefined)
-                sink_dataLine(chalk.gray(`      ${u.reason}`));
-        }
-        if (unconfirmed.length > 0) {
-            sink_dataLine(chalk.gray(`  The retrieve watch ended before ${unconfirmed.length} series finished. ` +
-                'That is a lost connection, not a failed retrieve.'));
-        }
+        unconfirmedLines_print(unconfirmed);
         // Only a real failure fails the command.
         if (failures.length > 0) {
             exitCode_set(1);
@@ -335,32 +364,95 @@ async function pulledFeed_create(title, allTasks, client) {
  * With `--retry N`: re-fires retrieves for [NO LONK] series up to N additional times.
  * With `--new-feed TITLE`: creates one feed from the exact successfully retrieved set.
  *
+ * The declaration's parse and handler, over words already split.
+ *
  * @param args - Command arguments (VFS paths, optional flags).
+ * @returns The outcome, or the refusal of a bad line.
  * @example
  * pull /net/pacs/queries/42_AccessionNumber:12345678
  * pull --retry 3 /net/pacs/queries/42_AccessionNumber:12345678/Study_1.2.3_US-Hips
  */
 export async function builtin_pull(args) {
-    if (args_checkHasHelpFlag(args, 'pull')) {
-        return envelope_ok(help_render('pull'));
-    }
-    const parsed = pullArgs_parse(args);
-    const { nowait, retryMax, newFeedTitle, parseError, paths } = parsed;
-    if (parseError !== null) {
-        sink_errLine(chalk.red(`pull: ${parseError}.`));
-        exitCode_set(1);
-        return envelope_error('');
-    }
-    if (nowait && newFeedTitle !== null) {
-        sink_errLine(chalk.red('pull: --new-feed cannot be combined with --detach.'));
-        exitCode_set(1);
-        return envelope_error('');
-    }
-    if (paths.length === 0) {
-        sink_errLine(chalk.red('pull: No paths specified. Usage: pull [--detach] [--retry N] [--new-feed <title>] <vfs-path> [...]'));
-        exitCode_set(1);
-        return envelope_error('');
-    }
+    return declaredCommand_run(pullCommand, args);
+}
+/**
+ * Refuses a pull line on the error channel, before anything is fired.
+ *
+ * @param reason - What is wrong, as a sentence.
+ * @returns The error envelope.
+ */
+function pullLine_refuse(reason) {
+    sink_errLine(chalk.red(`pull: ${reason}`));
+    exitCode_set(1);
+    return envelope_error('');
+}
+/**
+ * `pull [options] <target>…`: the declaration. `pacs pull` takes the same
+ * line (`PULL_GRAMMAR`) and runs the same handler.
+ *
+ * @example
+ * ```ts
+ * commands_register({ declarations: [pullCommand] }, 'backend');
+ * ```
+ */
+export const pullCommand = command_declare({
+    name: 'pull',
+    grammar: PULL_GRAMMAR,
+    help: {
+        summary: 'Pull PACS series into ChRIS storage; accepts VFS paths or query expressions (blocking)',
+        description: 'Pull PACS series into ChRIS storage, blocking, with LONK progress per series: every series under a '
+            + '/net/pacs/queries/… path (a query, a study or a series), or under the answer to a Key:Value question, '
+            + 'which is asked first. A series already in CUBE is skipped. --detach fires the retrieves and returns '
+            + 'their handles at once; --new-feed makes one feed of the complete retrieved selection.',
+        category: 'PACS',
+        examples: [
+            '# Pull all series in a query (blocking)',
+            'pull /net/pacs/queries/42_AccessionNumber:12345678',
+            '',
+            '# Pull a single study',
+            'pull /net/pacs/queries/42_AccessionNumber:12345678/Study_1.2.3_US-Hips_DDH',
+            '',
+            '# Pull a specific series',
+            'pull /net/pacs/queries/42_AccessionNumber:12345678/Study_1.2.3_US-Hips_DDH/Series_1.2.3.4_XR',
+            '',
+            '# Pull multiple paths in one blocking call',
+            'pull /net/pacs/queries/42_AccessionNumber:12345678 /net/pacs/queries/43_PatientID:P001',
+            '',
+            '# Pull directly from a query expression (creates query, waits, then pulls)',
+            'pull PatientID:1234',
+            'pull AccessionNumber:12345678',
+            'pull AccessionNumber:12345678 --new-feed "Brain MRI"',
+            '',
+            '# Detached: take the handles and carry on',
+            'pull --detach /net/pacs/queries/42_AccessionNumber:12345678',
+            '# Output: <seriesUID> <retrieveId>  (one per series, in tree-walk order)',
+        ],
+    },
+    handler: pullLine_run,
+});
+/**
+ * Pulls the series a line names: the handler of `pull` and of `pacs pull`.
+ *
+ * @param args - The line, parsed.
+ * @returns The outcome; the progress and the CUBE paths stream as it runs.
+ *
+ * @example
+ * ```ts
+ * await pullLine_run({ operands: { target: ['/net/pacs/queries/42_AccessionNumber:1'] }, options: { detach: true, … } });
+ * ```
+ */
+export async function pullLine_run(args) {
+    const nowait = args.options.detach || args.options.nowait;
+    const retryMax = args.options.retry ?? 0;
+    const paths = args.operands.target;
+    const titles = args.options.newFeed;
+    if (titles.length > 1)
+        return pullLine_refuse('--new-feed may only be specified once.');
+    const newFeedTitle = titles[0] === undefined ? null : titles[0].trim();
+    if (newFeedTitle === '')
+        return pullLine_refuse('--new-feed requires a title.');
+    if (nowait && newFeedTitle !== null)
+        return pullLine_refuse('--new-feed cannot be combined with --detach.');
     const pacsIdentifier = await pacsServer_resolve();
     if (!pacsIdentifier) {
         sink_errLine(chalk.red('pull: No PACS server available. Set one with: pacs connect <id>'));

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package/dist/builtins/fs/pwd.d.ts

@@ -1,11 +1,25 @@
 import { CommandEnvelope } from '@fnndsc/menu';
 /**
- * Reports the current working directory in the ChRIS filesystem context.
+ * `pwd [--title]`: the declaration.
  *
- * @param args - Command arguments (--title flag supported).
- * @returns An envelope whose rendered text is the directory (with feed and
- *   plugin segments replaced by titles under --title) and whose model
- *   carries the raw path.
+ * @example
+ * ```ts
+ * commands_register({ declarations: [pwdCommand] });
+ * ```
+ */
+export declare const pwdCommand: import("../../core/commandDeclaration.js").CommandDeclaration<{
+    readonly options: {
+        readonly title: {
+            readonly long: "title";
+            readonly summary: "Replace feed_XXXX and pl-<name>_XXXX with titles in path";
+        };
+    };
+}>;
+/**
+ * `pwd` over words already split: the declaration's parse and handler.
+ *
+ * @param args - The words after `pwd`.
+ * @returns The directory, or the refusal of a bad line.
  */
 export declare function builtin_pwd(args?: string[]): Promise<CommandEnvelope>;
 /** Typed invocation options for pwd. */

package/dist/builtins/fs/pwd.js

@@ -1,20 +1,74 @@
 /**
- * @file Builtin pwd command.
- * Reports the current working directory as a command envelope.
+ * @file `pwd`: where the session stands in ChRIS's filesystem (CFS).
+ *
+ * Declared in one record (`pwdCommand`): `--title` shows the feed and
+ * plugin instance folders by their titles.
+ *
+ * Key components:
+ * - pwdCommand: the declaration.
+ * - builtin_pwd: the declaration run over words already split.
+ * - pwd_run: the typed core behind both, and the typed API.
+ *
+ * Typical usage:
+ * ```ts
+ * await builtin_pwd(['--title']);
+ * await pwd_run({ titles: true });
+ * ```
+ *
+ * Dependencies: the session's cwd; the backend's segment titles.
+ *
+ * @module
  */
 import { session } from '../../session/index.js';
 import { backendInstalled_get } from '../../core/backend.js';
 import { envelope_ok } from '@fnndsc/menu';
+import { command_declare } from '../../core/commandDeclaration.js';
+import { declaredCommand_run } from '../../core/commandParse.js';
+/** What a `pwd` line may hold. */
+const PWD_GRAMMAR = {
+    options: {
+        title: { long: 'title', summary: 'Replace feed_XXXX and pl-<name>_XXXX with titles in path' },
+    },
+};
+/**
+ * `pwd [--title]`: the declaration.
+ *
+ * @example
+ * ```ts
+ * commands_register({ declarations: [pwdCommand] });
+ * ```
+ */
+export const pwdCommand = command_declare({
+    name: 'pwd',
+    grammar: PWD_GRAMMAR,
+    help: {
+        summary: 'Print current working directory',
+        description: "Prints where the session stands in ChRIS's filesystem. --title shows each feed and plugin instance folder by its title instead.",
+        category: 'Navigation',
+        posix: { group: 'Files', differs: 'where the session stands in CFS' },
+        examples: [
+            'pwd                  # Show actual path',
+            'pwd --title          # Show path with feed/plugin titles',
+            '',
+            '# Example output:',
+            '# pwd',
+            '# /home/chris/feeds/feed_2326/pl-dircopy_176660/data',
+            '',
+            '# pwd --title',
+            '# /home/chris/feeds/Brain MRI Analysis/dircopy v2.1.1/data',
+        ],
+    },
+    holds: [],
+    handler: async (args) => pwd_run({ titles: args.options.title }),
+});
 /**
- * Reports the current working directory in the ChRIS filesystem context.
+ * `pwd` over words already split: the declaration's parse and handler.
  *
- * @param args - Command arguments (--title flag supported).
- * @returns An envelope whose rendered text is the directory (with feed and
- *   plugin segments replaced by titles under --title) and whose model
- *   carries the raw path.
+ * @param args - The words after `pwd`.
+ * @returns The directory, or the refusal of a bad line.
  */
 export async function builtin_pwd(args = []) {
-    return pwd_run({ titles: args.includes('--title') });
+    return declaredCommand_run(pwdCommand, args);
 }
 /**
  * Reports the current working directory: the shared typed core behind the

package/dist/builtins/fs/pwd.js.map

@@ -1 +1 @@
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package/dist/builtins/fs/rm.d.ts

@@ -1,10 +1,18 @@
 import { CommandEnvelope } from '@fnndsc/menu';
 /**
- * Parsed `rm` arguments: flags plus the resolved list of path operands.
+ * What `rm` is asked to do: its switches, and its operands as typed.
+ *
+ * @example
+ * ```ts
+ * const args: RmArgs = { recursive: true, force: false, interactive: false, once: false, paths: ['scratch'] };
+ * ```
  */
 export interface RmArgs {
+    /** Remove folders with all they hold (`-r`, `-R`). */
     recursive: boolean;
+    /** Nothing there is fine (`-f`). */
     force: boolean;
+    /** Ask before each removal (`-i`). */
     interactive: boolean;
     /**
      * Ask ONCE for the whole list rather than once per target (`-I`), which
@@ -12,22 +20,9 @@ export interface RmArgs {
      * confirmation an operator learns to dismiss without reading.
      */
     once: boolean;
+    /** The operands, as typed. */
     paths: string[];
-    /** The refusal line for an option rm does not have, when one was given. */
-    refused?: string;
 }
-/**
- * Parses `rm` arguments, supporting combined short flags (`-rf`, `-rfi`),
- * the long forms (`--recursive`, `--force`, `--interactive`) and the `--`
- * end-of-options separator. An option rm does not have is refused by name
- * — never skipped, and never read letter by letter (`--force` once turned
- * recursion on through its `r`).
- *
- * @param args - Raw command arguments.
- * @returns The parsed flags and path operands, with `refused` set for the
- *   first unknown option.
- */
-export declare function rmArgs_parse(args: string[]): RmArgs;
 /**
  * Formats the multi-target removal summary line.
  *
@@ -43,20 +38,62 @@ export interface RmOutcome {
     skipped: boolean;
 }
 /**
- * Removes one or more files or directories.
+ * `rm [-rRfiI] <path…>`: the declaration.
  *
- * In interactive mode (-i) output is streamed live through the sink so each
- * confirmation prompt appears in sequence with its result; the envelope then
- * carries only the model. Otherwise output is buffered into the envelope.
+ * @example
+ * ```ts
+ * commands_register({ declarations: [rmCommand] });
+ * ```
+ */
+export declare const rmCommand: import("../../core/commandDeclaration.js").CommandDeclaration<{
+    readonly operands: readonly [{
+        readonly name: "paths";
+        readonly kind: "cfsPath";
+        readonly repeat: true;
+        readonly glob: true;
+        readonly summary: "What to remove: files, or folders with -r; a wildcard matches paths";
+    }];
+    readonly options: {
+        readonly recursive: {
+            readonly short: "r";
+            readonly long: "recursive";
+            readonly summary: "Remove folders and all they hold (without it a folder is \"Is a directory\")";
+        };
+        readonly recursiveAlias: {
+            readonly short: "R";
+            readonly summary: "The same as -r";
+        };
+        readonly force: {
+            readonly short: "f";
+            readonly long: "force";
+            readonly summary: "Force removal: a path not there is fine";
+        };
+        readonly interactive: {
+            readonly short: "i";
+            readonly long: "interactive";
+            readonly summary: "Ask before every removal";
+        };
+        readonly once: {
+            readonly short: "I";
+            readonly summary: "Ask ONCE for the whole list, naming how many";
+        };
+    };
+}>;
+/**
+ * `rm` over words already split: the declaration's parse and handler.
  *
- * @param args - Command line arguments (flags and paths).
- * @returns An envelope whose model lists per-target outcomes.
+ * @param args - The words after `rm`.
+ * @returns An envelope whose model lists per-target outcomes, or the refusal of a bad line.
  */
 export declare function builtin_rm(args: string[]): Promise<CommandEnvelope>;
 /**
  * Removes files or directories: the shared typed core behind the parsed
  * builtin and the typed API.
  *
+ * In interactive mode (-i, -I) output is streamed live through the sink so
+ * each confirmation prompt appears in sequence with its result; the envelope
+ * then carries only the model. Otherwise output is buffered into the envelope.
+ *
  * @param runArgs - Flags and target paths.
  * @returns An envelope whose model lists per-target outcomes.
  */