mirror of
https://github.com/Ponce/slackbuilds
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64 lines
3.4 KiB
Diff
64 lines
3.4 KiB
Diff
diff --git a/src/plugins_3rdparty/hmm3/src/hmmer3/hmmer3_funcs.cpp b/src/plugins_3rdparty/hmm3/src/hmmer3/hmmer3_funcs.cpp
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index b458c12..23fa49b 100644
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--- a/src/plugins_3rdparty/hmm3/src/hmmer3/hmmer3_funcs.cpp
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+++ b/src/plugins_3rdparty/hmm3/src/hmmer3/hmmer3_funcs.cpp
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@@ -33,7 +33,7 @@ float infinity() {
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}
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bool isfin( float x ) {
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- return !isnan( x ) && !isinf( x );
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+ return !std::isnan( x ) && !std::isinf( x );
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}
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const char TERM_SYM = '\0';
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diff --git a/src/plugins_3rdparty/hmm3/src/hmmer3/impl_sse/decoding.cpp b/src/plugins_3rdparty/hmm3/src/hmmer3/impl_sse/decoding.cpp
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index 9050f1c..6032970 100644
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--- a/src/plugins_3rdparty/hmm3/src/hmmer3/impl_sse/decoding.cpp
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+++ b/src/plugins_3rdparty/hmm3/src/hmmer3/impl_sse/decoding.cpp
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@@ -134,7 +134,7 @@ p7_Decoding(const P7_OPROFILE *om, const P7_OMX *oxf, P7_OMX *oxb, P7_OMX *pp)
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if (oxb->has_own_scales) scaleproduct *= oxf->xmx[i*p7X_NXCELLS+p7X_SCALE] / oxb->xmx[i*p7X_NXCELLS+p7X_SCALE];
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}
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- if (isinf(scaleproduct)) return eslERANGE;
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+ if (std::isinf(scaleproduct)) return eslERANGE;
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else return eslOK;
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}
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@@ -188,7 +188,7 @@ p7_DomainDecoding(const P7_OPROFILE *om, const P7_OMX *oxf, const P7_OMX *oxb, P
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}
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ddef->L = oxf->L;
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- if (isinf(scaleproduct)) return eslERANGE;
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+ if (std::isinf(scaleproduct)) return eslERANGE;
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else return eslOK;
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}
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/*------------------ end, posterior decoding --------------------*/
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diff --git a/src/plugins_3rdparty/hmm3/src/hmmer3/impl_sse/fwdback.cpp b/src/plugins_3rdparty/hmm3/src/hmmer3/impl_sse/fwdback.cpp
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index 5bafaa4..413a6fe 100644
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--- a/src/plugins_3rdparty/hmm3/src/hmmer3/impl_sse/fwdback.cpp
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+++ b/src/plugins_3rdparty/hmm3/src/hmmer3/impl_sse/fwdback.cpp
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@@ -465,9 +465,9 @@ forward_engine(int do_full, const ESL_DSQ *dsq, int L, const P7_OPROFILE *om, P7
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/* On an underflow (which shouldn't happen), we counterintuitively return infinity:
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* the effect of this is to force the caller to rescore us with full range.
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*/
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- if (isnan(xC)) ESL_EXCEPTION(eslERANGE, "forward score is NaN");
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+ if (std::isnan(xC)) ESL_EXCEPTION(eslERANGE, "forward score is NaN");
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else if (L>0 && xC == 0.0) ESL_EXCEPTION(eslERANGE, "forward score underflow (is 0.0)");
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- else if (isinf(xC) == 1) ESL_EXCEPTION(eslERANGE, "forward score overflow (is infinity)");
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+ else if (std::isinf(xC) == 1) ESL_EXCEPTION(eslERANGE, "forward score overflow (is infinity)");
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if (opt_sc != NULL) *opt_sc = ox->totscale + log((double)(xC * om->xf[p7O_C][p7O_MOVE]));
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return eslOK;
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@@ -742,9 +742,9 @@ backward_engine(int do_full, const ESL_DSQ *dsq, int L, const P7_OPROFILE *om, c
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if (bck->debugging) p7_omx_DumpFBRow(bck, TRUE, 0, 9, 4, bck->xmx[p7X_E], bck->xmx[p7X_N], bck->xmx[p7X_J], bck->xmx[p7X_B], bck->xmx[p7X_C]); /* logify=TRUE, <rowi>=0, width=9, precision=4*/
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#endif
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- if (isnan(xN)) ESL_EXCEPTION(eslERANGE, "backward score is NaN");
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+ if (std::isnan(xN)) ESL_EXCEPTION(eslERANGE, "backward score is NaN");
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else if (L>0 && xN == 0.0) ESL_EXCEPTION(eslERANGE, "backward score underflow (is 0.0)");
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- else if (isinf(xN) == 1) ESL_EXCEPTION(eslERANGE, "backward score overflow (is infinity)");
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+ else if (std::isinf(xN) == 1) ESL_EXCEPTION(eslERANGE, "backward score overflow (is infinity)");
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if (opt_sc != NULL) *opt_sc = bck->totscale + log((double)xN);
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return eslOK;
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