U `»{jÅã@szdZddlZddlZddlmZddlmZe e ¡j Z ddd „Z d d „Z dd d„Z dd„Zddd„Zddefdd„ZdS)zPeak detection algorithms.éN)Úoptimize)Úsimpsç333333Ó?éFcCslt|tjƒr$t |jtj¡r$tdƒ‚|sJ|t |¡t |¡t |¡}t |ƒ}t  |¡}t  |dk¡\}t |ƒt |ƒdkrŠt  g¡St |ƒrt  |¡}t t  |dk¡d¡\}t ||¡}|dddkrø||ddd||d<| d¡t |ƒrB|ddt |ƒdkrB||ddd||d<| d¡|D]H} t | ¡} || dd|| | | k<|| dd|| | | k<qFt  t |dg¡dkt d|g¡dk@t ||¡@¡d} | jdkrh|dkrh| t || ¡ddd…} tj|jtd} d| | <| D]<}| |sttd||ƒ||dƒ}d | |<d| |<qt |j¡| } | S) aøPeak detection routine. Finds the numeric index of the peaks in *y* by taking its first order difference. By using *thres* and *min_dist* parameters, it is possible to reduce the number of detected peaks. *y* must be signed. Parameters ---------- y : ndarray (signed) 1D amplitude data to search for peaks. thres : float between [0., 1.] Normalized threshold. Only the peaks with amplitude higher than the threshold will be detected. min_dist : int Minimum distance between each detected peak. The peak with the highest amplitude is preferred to satisfy this constraint. thres_abs: boolean If True, the thres value will be interpreted as an absolute value, instead of a normalized threshold. Returns ------- ndarray Array containing the numeric indexes of the peaks that were detected. When using with Pandas DataFrames, iloc should be used to access the values at the returned positions. zy must be signedrréÿÿÿÿgN©ÚdtypeFT)Ú isinstanceÚnpZndarrayZ issubdtyperZunsignedintegerÚ ValueErrorÚmaxÚminÚintÚdiffÚwhereÚlenÚarrayÚaddÚsplitÚpopÚmedianZhstackZgreaterÚsizeZargsortZonesÚboolÚsliceÚarange)ÚyZthresZmin_distZ thres_absZdyZzerosZ zeros_diffZzeros_diff_not_oneZ zero_plateausZplateaurZpeaksZhighestÚremZpeakÚsl©rúM/var/www/html/bwave/python/venv/lib/python3.8/site-packages/peakutils/peak.pyÚindexes sV"      $   ÿ þÿü  r cCst ||¡t |¡S)a-Computes the centroid for the specified data. Refer to centroid2 for a more complete, albeit slower version. Parameters ---------- x : ndarray Data on the x axis. y : ndarray Data on the y axis. Returns ------- float Centroid of the data. )r Úsum)ÚxrrrrÚcentroidksr#çð?cCsjt |¡}|dkr&tj|jdd|}t||ƒ}t|||ƒ|}t||d||ƒ|}|t |¡fS)aYComputes the centroid for the specified data. Not intended to be used Parameters ---------- y : array_like Array whose centroid is to be calculated. x : array_like, optional The points at which y is sampled. Returns ------- (centroid, sd) Centroid and standard deviation of the data. NÚfloatré)r rrrrÚsqrt)rr"ZdxZytZ normaliserr#ÚvarrrrÚ centroid2~s  r)cCs,|t |t|ƒd d|dt¡S)a/Computes the Gaussian function. Parameters ---------- x : number Point to evaluate the Gaussian for. a : number Amplitude. b : number Center. c : number Width. Returns ------- float Value of the specified Gaussian at *x* r&g@)r Úexpr%Úeps)r"ÚamplÚcenterÚdevrrrÚgaussian˜sr/TcCs`t|ƒdkrtdƒ‚t |¡|d|d|ddg}t t|||¡\}}|rX|dS|SdS)aPerforms a Gaussian fitting of the specified data. Parameters ---------- x : ndarray Data on the x axis. y : ndarray Data on the y axis. center_only: bool If True, returns only the center of the Gaussian for `interpolate` compatibility Returns ------- ndarray or float If center_only is `False`, returns the parameters of the Gaussian that fits the specified data If center_only is `True`, returns the center position of the Gaussian éz/At least 3 points required for Gaussian fittingrréN)rÚ RuntimeErrorr r rZ curve_fitr/)r"rZ center_onlyÚinitialÚparamsZpcovrrrÚ gaussian_fit®s $r5é c Cs¤|j|jkst‚|dkr t|ƒ}g}|D]p}t||||dƒ}z|||||ƒ}Wn4tk rŒ} zt t| ƒ¡|}W5d} ~ XYnX| |¡q(t   |¡S)aËTries to enhance the resolution of the peak detection by using Gaussian fitting, centroid computation or an arbitrary function on the neighborhood of each previously detected peak index. RuntimeErrors raised in the fitting function will be converted to warnings, with the peak being mantained as the original one (in the ind array). Parameters ---------- x : ndarray Data on the x dimension. y : ndarray Data on the y dimension. ind : ndarray Indexes of the previously detected peaks. If None, indexes() will be called with the default parameters. width : int Number of points (before and after) each peak index to pass to *func* in order to increase the resolution in *x*. func : function(x,y) Function that will be called to detect an unique peak in the x,y data. Returns ------- ndarray : Array with the adjusted peak positions (in *x*) Nr) ÚshapeÚAssertionErrorr rr2ÚwarningsÚwarnÚstrÚappendr r) r"rÚindÚwidthÚfuncÚoutÚiZslice_Zbest_idxÚerrrÚ interpolateÍs rC)rrF)Nr$)T)Ú__doc__r9Únumpyr ZscipyrZscipy.integraterZfinfor%r+r r#r)r/r5rCrrrrÚs    _