emdb - npm Package Compare versions

Comparing version 3.1.10 to 3.2.0

lib/index.js

@@ -164,16 +164,3 @@ 'use strict';
  * @param {object}    [options.fragmentation.full=true]
- * @param {object}    [options.filter={}]
- * @param {number}    [options.filter.minCharge=-Infinity] - Minimal charge
- * @param {number}    [options.filter.maxCharge=+Infinity] - Maximal charge
- * @param {boolean}   [options.filter.absoluteCharge=false] - If true, the charge is absolute (so between 0 and +Infinity by default)
- * @param {object}    [options.filter.unsaturation={}]
- * @param {number}    [options.filter.unsaturation.min=-Infinity] - Minimal unsaturation
- * @param {number}    [options.filter.unsaturation.max=+Infinity] - Maximal unsaturation
- * @param {boolean}   [options.filter.unsaturation.onlyInteger=false] - Integer unsaturation
- * @param {boolean}   [options.filter.unsaturation.onlyNonInteger=false] - Non integer unsaturation
- * @param {number}    [options.filter.targetMass] - Target mass, allows to calculate error and filter results
- * @param {number[]}  [options.filter.targetMasses] - Target masses: SORTED array of numbers
- * @param {number[]}  [options.filter.targetIntensities] - Target intensities: SORTED array of numbers
- * @param {object}    [options.filter.atoms] - object of atom:{min, max}
- * @param {function}  [options.filter.callback] - a function to filter the MF
+ * @param {import('mf-matcher').MSEMFilterOptions}        [options.filter={}]
  * @returns {Promise}
@@ -819,20 +806,3 @@ */
 * @param {string}   [options.ionizations] - list the allowed ionizations possibilities
-* @param {object}   [options.filter={}]
-* @param {number}   [options.filter.targetMass] - Target mass, allows to calculate error and filter results
-* @param {number[]} [options.filter.targetMasses] - Target masses: SORTED array of numbers
-* @param {number[]} [options.filter.targetIntensities] - Target intensities: SORTED array of numbers
-* @param {number}   [options.filter.minEM=0] - Minimal monoisotopic mass
-* @param {number}         [options.filter.maxEM=+Infinity] - Maximal monoisotopic mass
-* @param {number}         [options.filter.minMSEM=0] - Minimal monoisotopic mass observed by mass
-* @param {number}         [options.filter.maxMSEM=+Infinity] - Maximal monoisotopic mass observed by mass
-* @param {number}         [options.filter.minCharge=-Infinity] - Minimal charge
-* @param {number}         [options.filter.maxCharge=+Infinity] - Maximal charge
-* @param {boolean}        [options.filter.absoluteCharge=false] - If true, the charge is absolute (so between 0 and +Infinity by default)
-* @param {object}         [options.filter.unsaturation={}]
-* @param {number}         [options.filter.unsaturation.min=-Infinity] - Minimal unsaturation
-* @param {number}         [options.filter.unsaturation.max=+Infinity] - Maximal unsaturation
-* @param {boolean}        [options.filter.unsaturation.onlyInteger=false] - Integer unsaturation
-* @param {boolean}        [options.filter.unsaturation.onlyNonInteger=false] - Non integer unsaturation
-* @param {object}         [options.filter.callback] - a function to filter the MF
-* @param {object}         [options.filter.atoms] - object of atom:{min, max}
+* @param {import('mf-matcher').MSEMFilterOptions}        [options.filter={}]
 */
@@ -839,0 +809,0 @@

package.json

 {
   "name": "emdb",
-  "version": "3.1.10",
+  "version": "3.2.0",
   "description": "Database manager for exact mass query",
@@ -29,6 +29,6 @@ "main": "lib/index.js",
     "mass-fragmentation": "^1.9.2",
-    "mf-finder": "^3.2.2",
-    "mf-from-google-sheet": "^3.0.5",
-    "mf-generator": "^3.1.2",
-    "mf-matcher": "^3.0.4",
+    "mf-finder": "^3.3.0",
+    "mf-from-google-sheet": "^3.0.6",
+    "mf-generator": "^3.2.0",
+    "mf-matcher": "^3.1.0",
     "mf-parser": "^3.1.0",
@@ -38,3 +38,3 @@ "mf-utilities": "^3.1.0",
     "ml-spectra-processing": "^14.2.2",
-    "ms-spectrum": "^3.4.4",
+    "ms-spectrum": "^3.5.0",
     "nucleotide": "^3.0.2",
@@ -50,3 +50,3 @@ "openchemlib-utils": "^5.12.1",
   },
-  "gitHead": "73a35d5a96443b87acbc1f94703a9c22dd33dbbc"
+  "gitHead": "50efac7c1872eeadb6304a3be7ef3c183ad3a7d2"
 }

src/from/fromMolecules.js

@@ -18,16 +18,3 @@ import { fragment } from 'mass-fragmentation';
  * @param {object}    [options.fragmentation.full=true]
- * @param {object}    [options.filter={}]
- * @param {number}    [options.filter.minCharge=-Infinity] - Minimal charge
- * @param {number}    [options.filter.maxCharge=+Infinity] - Maximal charge
- * @param {boolean}   [options.filter.absoluteCharge=false] - If true, the charge is absolute (so between 0 and +Infinity by default)
- * @param {object}    [options.filter.unsaturation={}]
- * @param {number}    [options.filter.unsaturation.min=-Infinity] - Minimal unsaturation
- * @param {number}    [options.filter.unsaturation.max=+Infinity] - Maximal unsaturation
- * @param {boolean}   [options.filter.unsaturation.onlyInteger=false] - Integer unsaturation
- * @param {boolean}   [options.filter.unsaturation.onlyNonInteger=false] - Non integer unsaturation
- * @param {number}    [options.filter.targetMass] - Target mass, allows to calculate error and filter results
- * @param {number[]}  [options.filter.targetMasses] - Target masses: SORTED array of numbers
- * @param {number[]}  [options.filter.targetIntensities] - Target intensities: SORTED array of numbers
- * @param {object}    [options.filter.atoms] - object of atom:{min, max}
- * @param {function}  [options.filter.callback] - a function to filter the MF
+ * @param {import('mf-matcher').MSEMFilterOptions}        [options.filter={}]
  * @returns {Promise}
@@ -34,0 +21,0 @@ */

src/searchMSEM.js

@@ -11,20 +11,3 @@ import { msemMatcher } from 'mf-matcher';
 * @param {string}   [options.ionizations] - list the allowed ionizations possibilities
-* @param {object}   [options.filter={}]
-* @param {number}   [options.filter.targetMass] - Target mass, allows to calculate error and filter results
-* @param {number[]} [options.filter.targetMasses] - Target masses: SORTED array of numbers
-* @param {number[]} [options.filter.targetIntensities] - Target intensities: SORTED array of numbers
-* @param {number}   [options.filter.minEM=0] - Minimal monoisotopic mass
-* @param {number}         [options.filter.maxEM=+Infinity] - Maximal monoisotopic mass
-* @param {number}         [options.filter.minMSEM=0] - Minimal monoisotopic mass observed by mass
-* @param {number}         [options.filter.maxMSEM=+Infinity] - Maximal monoisotopic mass observed by mass
-* @param {number}         [options.filter.minCharge=-Infinity] - Minimal charge
-* @param {number}         [options.filter.maxCharge=+Infinity] - Maximal charge
-* @param {boolean}        [options.filter.absoluteCharge=false] - If true, the charge is absolute (so between 0 and +Infinity by default)
-* @param {object}         [options.filter.unsaturation={}]
-* @param {number}         [options.filter.unsaturation.min=-Infinity] - Minimal unsaturation
-* @param {number}         [options.filter.unsaturation.max=+Infinity] - Maximal unsaturation
-* @param {boolean}        [options.filter.unsaturation.onlyInteger=false] - Integer unsaturation
-* @param {boolean}        [options.filter.unsaturation.onlyNonInteger=false] - Non integer unsaturation
-* @param {object}         [options.filter.callback] - a function to filter the MF
-* @param {object}         [options.filter.atoms] - object of atom:{min, max}
+* @param {import('mf-matcher').MSEMFilterOptions}        [options.filter={}]
 */
@@ -31,0 +14,0 @@

No alert changes

Worsened metrics

Total package byte prevSize

1331576

decreased by-0.4%

Lines of code

3522

decreased by-1.68%

Dependency changes

• Updatedmf-finder@^3.3.0

• Updatedmf-from-google-sheet@^3.0.6

• Updatedmf-generator@^3.2.0

• Updatedmf-matcher@^3.1.0

• Updatedms-spectrum@^3.5.0