ó £áSc@`sŒdZddlmZmZmZddlZddlZddlZddlZddl Z ddl m Z ddl m Z mZmZejddkr°ddlmZnddlmZd d d d d ddddddddddddddddddd d!d"gZdZd#d$„Zd%„Zd&„Zd'„Zd(„Zejd) d*krd+ejƒgd,„Zd+ejƒd-„Zngd.„Zd/„Zejd0kríejd d1krídd2ddd3„Z!d4dd5„Znd6e"d]d9„Z#d#e"d:„Z$d;„Z%d<d#e"d=„Z&d<d#e"d>„Z'd#e"d#d?„Z(d#e"d@„Z)dAd#e"dB„Z*d#e"dC„Z+dD„Z,dE„Z-de"dF„Z.dG„Z/dH„Z0ddI„Z1dddJ„Z2dK„Z3dLdd#e"dM„Z4ddN„Z5dddO„Z6ddP„Z7dQ„Z8dR„Z9dSe:fdT„ƒYZ;dUe:fdV„ƒYZ<dW„Z=dX„Z>e dYdZd[„Z?d"e@fd\„ƒYZAdS(^s* Utility function to facilitate testing. i(tdivisiontabsolute_importtprint_functionNi(t import_nose(tfloat32temptytarangei(tStringIOt assert_equaltassert_almost_equaltassert_approx_equaltassert_array_equaltassert_array_lesstassert_string_equaltassert_array_almost_equalt assert_raisest build_err_msgtdecorate_methodstjiffiestmemusagetprint_assert_equaltraisestrandtrundocst runstringtverbosetmeasuretassert_tassert_array_almost_equal_nulptassert_array_max_ulpt assert_warnstassert_no_warningstassert_allclosetIgnoreExceptiontcC`s|st|ƒ‚ndS(s Assert that works in release mode. The Python built-in ``assert`` does not work when executing code in optimized mode (the ``-O`` flag) - no byte-code is generated for it. For documentation on usage, refer to the Python documentation. N(tAssertionError(tvaltmsg((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR!s cC`sDddlm}||ƒ}t|ttƒƒr@tdƒ‚n|S(slike isnan, but always raise an error if type not supported instead of returning a TypeError object. Notes ----- isnan and other ufunc sometimes return a NotImplementedType object instead of raising any exception. This function is a wrapper to make sure an exception is always raised. This should be removed once this problem is solved at the Ufunc level.i(tisnans!isnan not supported for this type(t numpy.coreR&t isinstancettypetNotImplementedt TypeError(txR&tst((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pytgisnan.s  cC`s`ddlm}m}|ddƒ5||ƒ}t|ttƒƒrVtdƒ‚nWdQX|S(s‡like isfinite, but always raise an error if type not supported instead of returning a TypeError object. Notes ----- isfinite and other ufunc sometimes return a NotImplementedType object instead of raising any exception. This function is a wrapper to make sure an exception is always raised. This should be removed once this problem is solved at the Ufunc level.i(tisfiniteterrstatetinvalidtignores$isfinite not supported for this typeN(R'R/R0R(R)R*R+(R,R/R0R-((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyt gisfinite?s  cC`s`ddlm}m}|ddƒ5||ƒ}t|ttƒƒrVtdƒ‚nWdQX|S(slike isinf, but always raise an error if type not supported instead of returning a TypeError object. Notes ----- isinf and other ufunc sometimes return a NotImplementedType object instead of raising any exception. This function is a wrapper to make sure an exception is always raised. This should be removed once this problem is solved at the Ufunc level.i(tisinfR0R1R2s!isinf not supported for this typeN(R'R4R0R(R)R*R+(R,R4R0R-((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pytgisinfQs  cG`skddl}ddlm}m}|||ƒ}|j}x*tt|ƒƒD]}|jƒ||tl((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyRqs  cC`sOy@t|dƒ}|jƒjdƒ}|jƒt|dƒSWndSXdS(sD Return virtual memory size in bytes of the running python. RARBiN(RERFRGRHRI(RJR>RL((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR€s cC`sDddl}|s(|j|jƒƒntd|jƒ|dƒS(s„ Return number of jiffies (1/100ths of a second) that this process has been scheduled in user mode. [Emulation with time.time]. iNid(RCRDRI(RKRC((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyRŽs cC`s t‚dS(s9 Return memory usage of running python. [Not implemented]N(tNotImplementedError(((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR•stnts2.3iÿÿÿÿc C`sºddl}|dkr$|j}n|j|||d||fƒ}|jƒ}zT|j||ƒ} z-|j|ƒ|j| |ƒ\} } | SWd|j| ƒXWd|j |ƒXdS(Ni( twin32pdhtNonet PDH_FMT_LONGtMakeCounterPatht OpenQueryt AddCountertCollectQueryDatatGetFormattedCounterValuet RemoveCountert CloseQuery( tobjecttcountertinstancetinumtformattmachineROtpaththqthcR)R$((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pytGetPerformanceAttributes›s  !  tpythoncC`s(ddl}tdd|||jdƒS(NitProcesss Virtual Bytes(RORbRQRP(t processNameR[RO((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR´s  sItems are not equal:tACTUALtDESIREDc C`sd|g}|rl|jdƒdkr\t|ƒdt|ƒkr\|dd|g}ql|j|ƒn|rx“t|ƒD]‚\}}yt|ƒ}Wn d}nX|jdƒdkrædj|jƒd ƒ}|d7}n|jd |||fƒqWndj|ƒS( Ns iÿÿÿÿiOiRBs [repr failed]is...s %s: %s(tfindR;RDt enumeratetreprtcounttjoint splitlines( tarraysterr_msgtheaderRtnamesR%R?taRA((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR»s  1  "cC`s×t|tƒr¿t|tƒs9ttt|ƒƒƒ‚ntt|ƒt|ƒ||ƒx`|jƒD]R\}}||kr’tt|ƒƒ‚nt||||d||f|ƒqeWdSt|tt fƒrNt|tt fƒrNtt|ƒt|ƒ||ƒx?t t|ƒƒD]+}t||||d||f|ƒqWdSddl m }m }m}ddlm} m} m} t||ƒs¤t||ƒr·t||||ƒSt||g|d|ƒ} y| |ƒpê| |ƒ} Wntk rt} nX| rµ| |ƒr5| |ƒ}| |ƒ}n |}d}| |ƒrh| |ƒ}| |ƒ}n |}d}yt||ƒt||ƒWqµtk r±t| ƒ‚qµXnyæ||ƒ||ƒkrßt| ƒ‚nt|ƒoôt|ƒsXt|ƒ}t|ƒ}|s|r9|o$|sTt| ƒ‚qTn||ksTt| ƒ‚ndS|dkrš|dkrš||ƒ||ƒksšt| ƒ‚qšnWntttfk r·nX||krÓt| ƒ‚ndS(s[ Raise an assertion if two objects are not equal. Given two objects (scalars, lists, tuples, dictionaries or numpy arrays), check that all elements of these objects are equal. An exception is raised at the first conflicting values. Parameters ---------- actual : array_like The object to check. desired : array_like The expected object. err_msg : str, optional The error message to be printed in case of failure. verbose : bool, optional If True, the conflicting values are appended to the error message. Raises ------ AssertionError If actual and desired are not equal. Examples -------- >>> np.testing.assert_equal([4,5], [4,6]) ... : Items are not equal: item=1 ACTUAL: 5 DESIRED: 6 s key=%r %sNs item=%r %si(tndarraytisscalartsignbit(t iscomplexobjtrealtimagR(R(tdictR#RjR)RR;titemstlistttupleR:R'RsRtRut numpy.libRvRwRxR Rt ValueErrortFalseR3R.R+RM(tactualtdesiredRoRtkR?RsRtRuRvRwRxR%t usecomplextactualrtactualitdesiredrtdesireditisdesnantisactnan((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyRÐst# )*)              cC`sddl}||ks}tƒ}|j|ƒ|jdƒ|j||ƒ|jdƒ|j||ƒt|jƒƒ‚ndS(sµ Test if two objects are equal, and print an error message if test fails. The test is performed with ``actual == desired``. Parameters ---------- test_string : str The message supplied to AssertionError. actual : object The object to test for equality against `desired`. desired : object The expected result. Examples -------- >>> np.testing.print_assert_equal('Test XYZ of func xyz', [0, 1], [0, 1]) >>> np.testing.print_assert_equal('Test XYZ of func xyz', [0, 1], [0, 2]) Traceback (most recent call last): ... AssertionError: Test XYZ of func xyz failed ACTUAL: [0, 1] DESIRED: [0, 2] iNs failed ACTUAL: s DESIRED: (tpprintRtwriteR#tgetvalue(t test_stringR€RRŠR%((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR?s      icC`sLddlm}ddlm}m}m}y||ƒpD||ƒ} Wntk rat} nXt||g|d|dd|ƒ} | r@||ƒr´||ƒ} ||ƒ} n |} d} ||ƒrç||ƒ} ||ƒ}n |} d}y*t | | d|ƒt | |d|ƒWq@t k r<t | ƒ‚q@Xnt ||t t fƒspt ||t t fƒrƒt||||ƒSy}t|ƒo›t|ƒsÿt|ƒs¶t|ƒràt|ƒoËt|ƒsût | ƒ‚qûn||ksût | ƒ‚ndSWnttfk rnXtt||ƒ|ƒdkrHt | ƒ‚ndS( sð Raise an assertion if two items are not equal up to desired precision. .. note:: It is recommended to use one of `assert_allclose`, `assert_array_almost_equal_nulp` or `assert_array_max_ulp` instead of this function for more consistent floating point comparisons. The test is equivalent to ``abs(desired-actual) < 0.5 * 10**(-decimal)``. Given two objects (numbers or ndarrays), check that all elements of these objects are almost equal. An exception is raised at conflicting values. For ndarrays this delegates to assert_array_almost_equal Parameters ---------- actual : array_like The object to check. desired : array_like The expected object. decimal : int, optional Desired precision, default is 7. err_msg : str, optional The error message to be printed in case of failure. verbose : bool, optional If True, the conflicting values are appended to the error message. Raises ------ AssertionError If actual and desired are not equal up to specified precision. See Also -------- assert_allclose: Compare two array_like objects for equality with desired relative and/or absolute precision. assert_array_almost_equal_nulp, assert_array_max_ulp, assert_equal Examples -------- >>> import numpy.testing as npt >>> npt.assert_almost_equal(2.3333333333333, 2.33333334) >>> npt.assert_almost_equal(2.3333333333333, 2.33333334, decimal=10) ... : Items are not equal: ACTUAL: 2.3333333333333002 DESIRED: 2.3333333399999998 >>> npt.assert_almost_equal(np.array([1.0,2.3333333333333]), ... np.array([1.0,2.33333334]), decimal=9) ... : Arrays are not almost equal (mismatch 50.0%) x: array([ 1. , 2.33333333]) y: array([ 1. , 2.33333334]) i(Rs(RvRwRxRRps*Arrays are not almost equal to %d decimalstdecimalN(R'RsR}RvRwRxR~RRR R#R(R|R{RR3R.RMR+troundtabs(R€RRŽRoRRsRvRwRxRƒR%R„R…R†R‡((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR fsN=         c C`sÝddl}tt||fƒ\}}||kr7dS|jddƒId|j|ƒ|j|ƒ}|jd|j|j|ƒƒƒ}WdQXy||}Wntk r»d}nXy||}Wntk rãd}nXt ||g|dd |d |ƒ} y}t |ƒo!t |ƒs…t |ƒs<t |ƒrft |ƒoQt |ƒst | ƒ‚qn||kst | ƒ‚ndSWnt tfk rŸnX|j||ƒ|jd |d  ƒkrÙt | ƒ‚ndS( sK Raise an assertion if two items are not equal up to significant digits. .. note:: It is recommended to use one of `assert_allclose`, `assert_array_almost_equal_nulp` or `assert_array_max_ulp` instead of this function for more consistent floating point comparisons. Given two numbers, check that they are approximately equal. Approximately equal is defined as the number of significant digits that agree. Parameters ---------- actual : scalar The object to check. desired : scalar The expected object. significant : int, optional Desired precision, default is 7. err_msg : str, optional The error message to be printed in case of failure. verbose : bool, optional If True, the conflicting values are appended to the error message. Raises ------ AssertionError If actual and desired are not equal up to specified precision. See Also -------- assert_allclose: Compare two array_like objects for equality with desired relative and/or absolute precision. assert_array_almost_equal_nulp, assert_array_max_ulp, assert_equal Examples -------- >>> np.testing.assert_approx_equal(0.12345677777777e-20, 0.1234567e-20) >>> np.testing.assert_approx_equal(0.12345670e-20, 0.12345671e-20, significant=8) >>> np.testing.assert_approx_equal(0.12345670e-20, 0.12345672e-20, significant=8) ... : Items are not equal to 8 significant digits: ACTUAL: 1.234567e-021 DESIRED: 1.2345672000000001e-021 the evaluated condition that raises the exception is >>> abs(0.12345670e-20/1e-21 - 0.12345672e-20/1e-21) >= 10**-(8-1) True iNR1R2gà?i gRps-Items are not equal to %d significant digits:Rg$@i(tnumpytmaptfloatR0Rtpowertfloortlog10tZeroDivisionErrorRR3R.R#R+RM( R€Rt significantRoRtnptscalet sc_desiredt sc_actualR%((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR Ùs>8   *      *c `sŒddlm}m}m}m} m} m} |ˆdtdtƒ‰|ˆdtdtƒ‰d„} d‡‡‡‡‡fd†} y’ˆj dkpµˆj dkpµˆj ˆj k}|st ˆˆgˆdˆj ˆj fd ˆd ˆd dƒ}|st |ƒ‚qn| ˆƒrQ| ˆƒrQ|ˆƒ|ˆƒ}}|ˆƒ|ˆƒ}}| |ƒss| |ƒr‰| ||ddƒn| |ƒs¡| |ƒræ| ˆ| kˆ| kddƒ| ˆ| kˆ| kddƒn||}}||O}||O}| |ƒrdS| |ƒr?|ˆ|ˆ|ƒ}q`|ˆˆƒ}n|ˆˆƒ}t |t ƒr|}dg}n$|jƒ}|jƒ}|jƒ}|sdd|jdƒt|ƒ}t ˆˆgˆd|fd ˆd ˆd dƒ}|st |ƒ‚qnWnntk r‡}ddl}|jƒ}d|ˆf‰t ˆˆgˆd ˆd ˆd dƒ}t|ƒ‚nXdS(Ni(tarrayR&R4tanytalltinftcopytsubokcS`s|jjdkS(Ns?bhilqpBHILQPefdgFDG(tdtypetchar(R,((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pytisnumber>stnanc `sdyt||ƒWnLtk r_tˆˆgˆd|dˆdˆddƒ}t|ƒ‚nXdS( sTHandling nan/inf: check that x and y have the nan/inf at the same locations.s x and y %s location mismatch:RRpRqR,tyN(R,R§(R R#R(tx_idty_idthasvalR%(RoRpRR,R§(sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pytchk_same_positionAs   s (shapes %s, %s mismatch)RRpRqR,R§Rªs+infs-infidgY@is (mismatch %s%%)serror during assertion: %s %s(((R,R§(R,R§(R,R§(R'RR&R4RžRŸR RtTruetshapeRR#R(tbooltravelttolistRkR;R~t tracebackt format_exc(t comparisonR,R§RoRRpRR&R4RžRŸR R¥R«tcondR%tx_isnanty_isnantx_isinfty_isinfR¨R©R$treducedtmatchteR±tefmt((RoRpRR,R§sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pytassert_array_compare8sn.  0    !$         !      c C`s)ttj||d|d|ddƒdS(s& Raise an assertion if two array_like objects are not equal. Given two array_like objects, check that the shape is equal and all elements of these objects are equal. An exception is raised at shape mismatch or conflicting values. In contrast to the standard usage in numpy, NaNs are compared like numbers, no assertion is raised if both objects have NaNs in the same positions. The usual caution for verifying equality with floating point numbers is advised. Parameters ---------- x : array_like The actual object to check. y : array_like The desired, expected object. err_msg : str, optional The error message to be printed in case of failure. verbose : bool, optional If True, the conflicting values are appended to the error message. Raises ------ AssertionError If actual and desired objects are not equal. See Also -------- assert_allclose: Compare two array_like objects for equality with desired relative and/or absolute precision. assert_array_almost_equal_nulp, assert_array_max_ulp, assert_equal Examples -------- The first assert does not raise an exception: >>> np.testing.assert_array_equal([1.0,2.33333,np.nan], ... [np.exp(0),2.33333, np.nan]) Assert fails with numerical inprecision with floats: >>> np.testing.assert_array_equal([1.0,np.pi,np.nan], ... [1, np.sqrt(np.pi)**2, np.nan]) ... : AssertionError: Arrays are not equal (mismatch 50.0%) x: array([ 1. , 3.14159265, NaN]) y: array([ 1. , 3.14159265, NaN]) Use `assert_allclose` or one of the nulp (number of floating point values) functions for these cases instead: >>> np.testing.assert_allclose([1.0,np.pi,np.nan], ... [1, np.sqrt(np.pi)**2, np.nan], ... rtol=1e-10, atol=0) RoRRpsArrays are not equalN(R½toperatort__eq__(R,R§RoR((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR Žs?ic `s„ddlm‰m‰m‰ddlm‰ddlm‰‡‡‡‡‡‡fd†}t|||d|d|dd ˆƒd S( s Raise an assertion if two objects are not equal up to desired precision. .. note:: It is recommended to use one of `assert_allclose`, `assert_array_almost_equal_nulp` or `assert_array_max_ulp` instead of this function for more consistent floating point comparisons. The test verifies identical shapes and verifies values with ``abs(desired-actual) < 0.5 * 10**(-decimal)``. Given two array_like objects, check that the shape is equal and all elements of these objects are almost equal. An exception is raised at shape mismatch or conflicting values. In contrast to the standard usage in numpy, NaNs are compared like numbers, no assertion is raised if both objects have NaNs in the same positions. Parameters ---------- x : array_like The actual object to check. y : array_like The desired, expected object. decimal : int, optional Desired precision, default is 6. err_msg : str, optional The error message to be printed in case of failure. verbose : bool, optional If True, the conflicting values are appended to the error message. Raises ------ AssertionError If actual and desired are not equal up to specified precision. See Also -------- assert_allclose: Compare two array_like objects for equality with desired relative and/or absolute precision. assert_array_almost_equal_nulp, assert_array_max_ulp, assert_equal Examples -------- the first assert does not raise an exception >>> np.testing.assert_array_almost_equal([1.0,2.333,np.nan], [1.0,2.333,np.nan]) >>> np.testing.assert_array_almost_equal([1.0,2.33333,np.nan], ... [1.0,2.33339,np.nan], decimal=5) ... : AssertionError: Arrays are not almost equal (mismatch 50.0%) x: array([ 1. , 2.33333, NaN]) y: array([ 1. , 2.33339, NaN]) >>> np.testing.assert_array_almost_equal([1.0,2.33333,np.nan], ... [1.0,2.33333, 5], decimal=5) : ValueError: Arrays are not almost equal x: array([ 1. , 2.33333, NaN]) y: array([ 1. , 2.33333, 5. ]) i(taroundtnumbertfloat_(t issubdtype(Ržc`sûy•ˆt|ƒƒs'ˆt|ƒƒr”t|ƒ}t|ƒ}||ksOtS|j|jkoldknr{||kS||}||}nWnttfk r®nXt||ƒ}ˆ|jˆƒsã|jˆƒ}nˆ|ˆƒdˆ kS(Nig$@(R5RtsizeR+RMRR£tastype(R,R§txinfidtyinfidtz(RÀRŽRÂRÃtnpanyRÁ(sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pytcompares $   "  RoRRps*Arrays are not almost equal to %d decimalsN( R'RÀRÁRÂtnumpy.core.numerictypesRÃtnumpy.core.fromnumericRžR½(R,R§RŽRoRRÊ((RÀRŽRÂRÃRÉRÁsM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyRÐs Ec C`s)ttj||d|d|ddƒdS(s< Raise an assertion if two array_like objects are not ordered by less than. Given two array_like objects, check that the shape is equal and all elements of the first object are strictly smaller than those of the second object. An exception is raised at shape mismatch or incorrectly ordered values. Shape mismatch does not raise if an object has zero dimension. In contrast to the standard usage in numpy, NaNs are compared, no assertion is raised if both objects have NaNs in the same positions. Parameters ---------- x : array_like The smaller object to check. y : array_like The larger object to compare. err_msg : string The error message to be printed in case of failure. verbose : bool If True, the conflicting values are appended to the error message. Raises ------ AssertionError If actual and desired objects are not equal. See Also -------- assert_array_equal: tests objects for equality assert_array_almost_equal: test objects for equality up to precision Examples -------- >>> np.testing.assert_array_less([1.0, 1.0, np.nan], [1.1, 2.0, np.nan]) >>> np.testing.assert_array_less([1.0, 1.0, np.nan], [1, 2.0, np.nan]) ... : Arrays are not less-ordered (mismatch 50.0%) x: array([ 1., 1., NaN]) y: array([ 1., 2., NaN]) >>> np.testing.assert_array_less([1.0, 4.0], 3) ... : Arrays are not less-ordered (mismatch 50.0%) x: array([ 1., 4.]) y: array(3) >>> np.testing.assert_array_less([1.0, 2.0, 3.0], [4]) ... : Arrays are not less-ordered (shapes (3,), (1,) mismatch) x: array([ 1., 2., 3.]) y: array([4]) RoRRpsArrays are not less-orderedN(R½R¾t__lt__(R,R§RoR((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR -sAcB`s||fdUdS(N((tastrRy((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyRrsc C`s>ddl}t|tƒs6ttt|ƒƒƒ‚nt|tƒs`ttt|ƒƒƒ‚ntjd|d|tjƒr„dSt |j ƒj |j dƒ|j dƒƒƒ}g}x?|rû|j dƒ}|jdƒrçq½n|jdƒræ|g}|j dƒ}|jdƒr<|j|ƒ|j dƒ}n|jd ƒs`tt|ƒƒ‚n|j|ƒ|j dƒ}|jdƒr›|j|ƒn|jd|ƒtjd|d d|d ƒrÓq½n|j|ƒq½ntt|ƒƒ‚q½W|sdSd d j|ƒjƒ} ||kr:t| ƒ‚ndS( sž Test if two strings are equal. If the given strings are equal, `assert_string_equal` does nothing. If they are not equal, an AssertionError is raised, and the diff between the strings is shown. Parameters ---------- actual : str The string to test for equality against the expected string. desired : str The expected string. Examples -------- >>> np.testing.assert_string_equal('abc', 'abc') >>> np.testing.assert_string_equal('abc', 'abcd') Traceback (most recent call last): File "", line 1, in ... AssertionError: Differences in strings: - abc+ abcd? + iNs\As\Zis s- s? s+ isDifferences in strings: %sR"(tdifflibR(tstrR#RjR)treRºtMR{tDifferRÊRmtpopt startswithRDtinserttextendRltrstrip( R€RRÏtdifft diff_listtd1RLtd2td3R%((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR usH  0    "  c`scddl}ddl}|dkrCtjdƒ}|jd}ntjjtjj |ƒƒd}tjj |ƒg}|j ||ƒ\}}} z|j |||| ƒ} Wd|j ƒX|jƒj| ƒ} |jdtƒ} g‰|r‡fd†} nd} x!| D]}| j|d| ƒqW| jdkr_|r_tdd jˆƒƒ‚ndS( sT Run doctests found in the given file. By default `rundocs` raises an AssertionError on failure. Parameters ---------- filename : str The path to the file for which the doctests are run. raise_on_error : bool Whether to raise an AssertionError when a doctest fails. Default is True. Notes ----- The doctests can be run by the user/developer by adding the ``doctests`` argument to the ``test()`` call. For example, to run all tests (including doctests) for `numpy.lib`: >>> np.lib.test(doctests=True) #doctest: +SKIP iNit__file__Rc`s ˆj|ƒS(N(RD(ts(R%(sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pytàstoutsSome doctests failed: %ss (tdoctesttimpRPtsyst _getframet f_globalstosR_tsplitexttbasenametdirnamet find_modulet load_moduleRHt DocTestFinderRht DocTestRunnerRtruntfailuresR#Rl(tfilenametraise_on_errorRâRãR>tnameR_tfiletpathnamet descriptiontmtteststrunnerRáttest((R%sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR¹s( "  cO`stƒ}|jj||ŽS(N(RttoolsR(R<tkwargstnose((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyRës cO`stƒ}|jj||ŽS(s‹ assert_raises(exception_class, callable, *args, **kwargs) Fail unless an exception of class exception_class is thrown by callable when invoked with arguments args and keyword arguments kwargs. If a different type of exception is thrown, it will not be caught, and the test case will be deemed to have suffered an error, exactly as for an unexpected exception. (RRûR(R<RüRý((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyRïs c C`s|dkr%tjdtjƒ}ntj|ƒ}|j}ddlm}g|jƒD]}||ƒrZ|^qZ}x…|D]}}y(t |dƒr£|j }n |j }Wnt k rÃqnX|j |ƒr|jdƒ rt||||ƒƒqqWdS(s  Apply a decorator to all methods in a class matching a regular expression. The given decorator is applied to all public methods of `cls` that are matched by the regular expression `testmatch` (``testmatch.search(methodname)``). Methods that are private, i.e. start with an underscore, are ignored. Parameters ---------- cls : class Class whose methods to decorate. decorator : function Decorator to apply to methods testmatch : compiled regexp or str, optional The regular expression. Default value is None, in which case the nose default (``re.compile(r'(?:^|[\b_\.%s-])[Tt]est' % os.sep)``) is used. If `testmatch` is a string, it is compiled to a regular expression first. s(?:^|[\\b_\\.%s-])[Tt]esti(t isfunctiontcompat_func_namet_N(RPRÑtcompileRçtsept__dict__tinspectRþtvaluesthasattrRÿt__name__tAttributeErrortsearchRÕtsetattr( tclst decoratort testmatchtcls_attrRþt_mtmethodstfunctiontfuncname((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyRþs   +    c B`sŠejdƒ}|j|j}}e|d|dƒ}d}eƒ}x+||krt|d7}|||fdUqJWeƒ|}d|S(sD Return elapsed time for executing code in the namespace of the caller. The supplied code string is compiled with the Python builtin ``compile``. The precision of the timing is 10 milli-seconds. If the code will execute fast on this timescale, it can be executed many times to get reasonable timing accuracy. Parameters ---------- code_str : str The code to be timed. times : int, optional The number of times the code is executed. Default is 1. The code is only compiled once. label : str, optional A label to identify `code_str` with. This is passed into ``compile`` as the second argument (for run-time error messages). Returns ------- elapsed : float Total elapsed time in seconds for executing `code_str` `times` times. Examples -------- >>> etime = np.testing.measure('for i in range(1000): np.sqrt(i**2)', ... times=times) >>> print "Time for a single execution : ", etime / times, "s" Time for a single execution : 0.005 s isTest name: %s texeciNg{®Gáz„?(RäRåtf_localsRæRR( tcode_strttimestlabeltframetlocstglobstcodeR?telapsed((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR-s!    c C`s”ddl}|jdƒ}|jdƒjddƒ}|}d}tj|ƒ}x#tdƒD]}|||ƒ}q^Wttj|ƒ|kƒdS(sg Check that ufuncs don't mishandle refcount of object `1`. Used in a few regression tests. iNidiii'i'(R‘RtreshapeRät getrefcountR:R( topR™RrtbtcR?trctjtd((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyt_assert_valid_refcount\s gH¯¼šò×z>c `s|ddl‰‡‡‡fd†}ˆj|ƒˆj|ƒ}}dˆˆf}t|||dt|ƒd|d|ƒdS(s Raise an assertion if two objects are not equal up to desired tolerance. The test is equivalent to ``allclose(actual, desired, rtol, atol)``. It compares the difference between `actual` and `desired` to ``atol + rtol * abs(desired)``. .. versionadded:: 1.5.0 Parameters ---------- actual : array_like Array obtained. desired : array_like Array desired. rtol : float, optional Relative tolerance. atol : float, optional Absolute tolerance. err_msg : str, optional The error message to be printed in case of failure. verbose : bool, optional If True, the conflicting values are appended to the error message. Raises ------ AssertionError If actual and desired are not equal up to specified precision. See Also -------- assert_array_almost_equal_nulp, assert_array_max_ulp Examples -------- >>> x = [1e-5, 1e-3, 1e-1] >>> y = np.arccos(np.cos(x)) >>> assert_allclose(x, y, rtol=1e-5, atol=0) iNc`sˆj||dˆdˆƒS(Ntrtoltatol(tallclose(R,R§(R'R™R&(sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyRÊ™ss'Not equal to tolerance rtol=%g, atol=%gRoRRp(R‘t asanyarrayR½RÐ(R€RR&R'RoRRÊRp((R'R™R&sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR ns * c C`sÚddl}|j|ƒ}|j|ƒ}||j|j||k||ƒƒ}|j|j||ƒ|kƒsÖ|j|ƒs’|j|ƒrŸd|}n(|jt||ƒƒ}d||f}t|ƒ‚ndS(s Compare two arrays relatively to their spacing. This is a relatively robust method to compare two arrays whose amplitude is variable. Parameters ---------- x, y : array_like Input arrays. nulp : int, optional The maximum number of unit in the last place for tolerance (see Notes). Default is 1. Returns ------- None Raises ------ AssertionError If the spacing between `x` and `y` for one or more elements is larger than `nulp`. See Also -------- assert_array_max_ulp : Check that all items of arrays differ in at most N Units in the Last Place. spacing : Return the distance between x and the nearest adjacent number. Notes ----- An assertion is raised if the following condition is not met:: abs(x - y) <= nulps * spacing(max(abs(x), abs(y))) Examples -------- >>> x = np.array([1., 1e-10, 1e-20]) >>> eps = np.finfo(x.dtype).eps >>> np.testing.assert_array_almost_equal_nulp(x, x*eps/2 + x) >>> np.testing.assert_array_almost_equal_nulp(x, x*eps + x) ------------------------------------------------------------ Traceback (most recent call last): ... AssertionError: X and Y are not equal to 1 ULP (max is 2) iNsX and Y are not equal to %d ULPs+X and Y are not equal to %d ULP (max is %g)( R‘RtspacingtwhereRŸRvtmaxt nulp_diffR#( R,R§tnulpR™taxtaytrefR%tmax_nulp((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR¡s2 (" cC`sJddl}t|||ƒ}|j||kƒsFtd|ƒ‚n|S(s£ Check that all items of arrays differ in at most N Units in the Last Place. Parameters ---------- a, b : array_like Input arrays to be compared. maxulp : int, optional The maximum number of units in the last place that elements of `a` and `b` can differ. Default is 1. dtype : dtype, optional Data-type to convert `a` and `b` to if given. Default is None. Returns ------- ret : ndarray Array containing number of representable floating point numbers between items in `a` and `b`. Raises ------ AssertionError If one or more elements differ by more than `maxulp`. See Also -------- assert_array_almost_equal_nulp : Compare two arrays relatively to their spacing. Examples -------- >>> a = np.linspace(0., 1., 100) >>> res = np.testing.assert_array_max_ulp(a, np.arcsin(np.sin(a))) iNs(Arrays are not almost equal up to %g ULP(R‘R-RŸR#(RrR tmaxulpR£R™tret((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyRßs $  c`s.ddl‰|r?ˆj|d|ƒ}ˆj|d|ƒ}nˆj|ƒ}ˆj|ƒ}ˆj||ƒ}ˆj|ƒsˆj|ƒrœtdƒ‚nˆj|d|ƒ}ˆj|d|ƒ}|j|jks÷td|j|jfƒ‚n‡fd†}t|ƒ}t|ƒ}||||ƒS(sEFor each item in x and y, return the number of representable floating points between them. Parameters ---------- x : array_like first input array y : array_like second input array Returns ------- nulp : array_like number of representable floating point numbers between each item in x and y. Examples -------- # By definition, epsilon is the smallest number such as 1 + eps != 1, so # there should be exactly one ULP between 1 and 1 + eps >>> nulp_diff(1, 1 + np.finfo(x.dtype).eps) 1.0 iNR£s'_nulp not implemented for complex arrays+x and y do not have the same shape: %s - %sc`s&ˆj||d|ƒ}ˆj|ƒS(NR£(RR(trxtrytvdtRÙ(R™(sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyt_diff5s(R‘Rt common_typeRvRMR­R~t integer_repr(R,R§R£ttR8R5R6((R™sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR- s$   cC`s\|j|ƒ}|jdks?|||dk||dktint32R7tint64R~(R,R™((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR:Ks  tWarningMessagecB`s,eZdZd Zd d d„Zd„ZRS( sè Holds the result of a single showwarning() call. Deprecated in 1.8.0 Notes ----- `WarningMessage` is copied from the Python 2.6 warnings module, so it can be used in NumPy with older Python versions. tmessagetcategoryRñtlinenoRôtlinec C`sStƒ}x%|jD]}t||||ƒqW|rF|j|_n d|_dS(N(tlocalst_WARNING_DETAILSR Rt_category_nameRP( tselfRBRCRñRDRôREt local_valuestattr((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyt__init__is  cC`s&d|j|j|j|j|jfS(NsD{message : %r, category : %r, filename : %r, lineno : %s, line : %r}(RBRHRñRDRE(RI((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyt__str__ss (smessagescategorysfilenameslinenosfileslineN(Rt __module__t__doc__RGRPRLRM(((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyRAXs   tWarningManagercB`s/eZdZedd„Zd„Zd„ZRS(sŸ A context manager that copies and restores the warnings filter upon exiting the context. The 'record' argument specifies whether warnings should be captured by a custom implementation of ``warnings.showwarning()`` and be appended to a list returned by the context manager. Otherwise None is returned by the context manager. The objects appended to the list are arguments whose attributes mirror the arguments to ``showwarning()``. The 'module' argument is to specify an alternative module to the module named 'warnings' and imported under that name. This argument is only useful when testing the warnings module itself. Deprecated in 1.8.0 Notes ----- `WarningManager` is a copy of the ``catch_warnings`` context manager from the Python 2.6 warnings module, with slight modifications. It is copied so it can be used in NumPy with older Python versions. cC`s>||_|dkr(tjd|_n ||_t|_dS(Ntwarnings(t_recordRPRätmodulest_moduleRt_entered(RItrecordtmodule((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyRLs    c`s‰|jrtd|ƒ‚nt|_|jj|_|j|j_|jj|_|jrg‰‡fd†}||j_ˆSdSdS(NsCannot enter %r twicec`sˆjt||ŽƒdS(N(RDRA(R<Rü(tlog(sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyt showwarning¡s( RUt RuntimeErrorR¬RTtfilterst_filtersRYt _showwarningRRRP(RIRY((RXsM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyt __enter__˜s    cC`s>|jstd|ƒ‚n|j|j_|j|j_dS(Ns%Cannot exit %r without entering first(RURZR\RTR[R]RY(RI((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyt__exit__¨s N(RRNRORRPRLR^R_(((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyRPxs c O`s™tjdtƒ}tjdƒ|||Ž}t|ƒdksYtd|jƒ‚n|dj|k rtd|j||dfƒ‚nWdQX|S(sá Fail unless the given callable throws the specified warning. A warning of class warning_class should be thrown by the callable when invoked with arguments args and keyword arguments kwargs. If a different type of warning is thrown, it will not be caught, and the test case will be deemed to have suffered an error. .. versionadded:: 1.4.0 Parameters ---------- warning_class : class The class defining the warning that `func` is expected to throw. func : callable The callable to test. \*args : Arguments Arguments passed to `func`. \*\*kwargs : Kwargs Keyword arguments passed to `func`. Returns ------- The value returned by `func`. RVtalwaysis!No warning raised when calling %ss(First warning for %s is not a %s( is %s)N(RQtcatch_warningsR¬t simplefilterR;R#RRC(t warning_classtfuncR<tkwRLtresult((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR¯s #cO`sitjdtƒQ}tjdƒ|||Ž}t|ƒdkr_td|j|fƒ‚nWdQX|S(sd Fail if the given callable produces any warnings. .. versionadded:: 1.7.0 Parameters ---------- func : callable The callable to test. \*args : Arguments Arguments passed to `func`. \*\*kwargs : Kwargs Keyword arguments passed to `func`. Returns ------- The value returned by `func`. RVR`is Got warnings when calling %s: %sN(RQRaR¬RbR;R#R(RdR<ReRLRf((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyRÕs tbinaryic #`sd}d}x tdƒD]ý‰xôtˆdtˆd|ƒƒD]Ò‰|dkr¤‡‡‡fd†}tˆfdˆƒˆ}||ƒ|ˆˆˆˆdffV|ƒ|ƒ|ˆˆˆˆd ffV|d |ƒd |ˆd ˆˆd ˆdffV|d |ƒd |ˆˆd ˆd ˆdffV|ƒd |ƒd |ˆˆd ˆd ˆd ffV|ƒd |ƒd |ˆd ˆˆd ˆd ffVn|d kr@‡‡‡fd†}‡‡‡fd†}tˆfdˆƒˆ}||ƒ|ƒ|ˆˆˆˆˆdffV|ƒ|ƒ|ƒ|ˆˆˆˆˆdffV|ƒ|ƒ|ƒ|ˆˆˆˆˆdffV|d |ƒd |ƒd |ˆd ˆˆˆd ˆdffV|d |ƒd |ƒd |ˆˆd ˆˆd ˆdffV|d |ƒd |ƒd |ˆˆˆd ˆd ˆdffV|ƒd |ƒd |ƒd |ˆd ˆˆˆd ˆd ffV|ƒd |ƒd |ƒd |ˆˆd ˆˆd ˆd ffV|ƒd |ƒd |ƒd |ˆˆˆd ˆd ˆd ffVq@q@WqWdS(sÓ generator producing data with different alignment and offsets to test simd vectorization Parameters ---------- dtype : dtype data type to produce type : string 'unary': create data for unary operations, creates one input and output array 'binary': create data for unary operations, creates two input and output array max_size : integer maximum size of data to produce Returns ------- if type is 'unary' yields one output, one input array and a message containing information on the data if type is 'binary' yields one output array, two input array and a message containing information on the data s,unary offset=(%d, %d), size=%d, dtype=%r, %ss1binary offset=(%d, %d, %d), size=%d, dtype=%r, %siitunaryc`stˆdˆƒˆS(NR£(R((R£toRß(sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyRàsR£s out of placesin placeiiÿÿÿÿtaliasedRgc`stˆdˆƒˆS(NR£(R((R£RiRß(sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyRàsc`stˆdˆƒˆS(NR£(R((R£RiRß(sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyRàss in place1s in place2N(R:R,R( R£R)tmax_sizetufmttbfmttinpRátinp1tinp2((R£RiRßsM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyt_gen_alignment_dataòsN' $'   # ###!#!#!cB`seZdZRS(s/Ignoring this exception due to disabled feature(RRNRO(((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pyR!4s(RfRg(BROt __future__RRRRçRäRÑR¾RQt nosetesterRR'RRRt version_infotioRt__all__RRR.R3R5RtplatformtgetpidRRRótversionRPRbR¬RRRR R R½R RR RR RRRRRR%R RRR-R>R:RYRARPRRRqt ExceptionR!(((sM/opt/xtal/ccp4-6.5-linux32/lib/python2.7/site-packages/numpy/testing/utils.pytsˆ                   " o 's_ UB]E  D2   // 2 >+ 3   7 & B