/dports/biology/clustal-omega/clustal-omega-1.2.4/src/squid/ |
H A D | msa.c | 117 msa->gf_tag = NULL; in MSAAlloc() 274 Free2DArray((void **) msa->gf_tag, msa->ngf); in MSAFree() 394 if (msa->gf_tag == NULL) { in MSAAddGF() 395 msa->gf_tag = MallocOrDie (sizeof(char *) * 10); in MSAAddGF() 401 msa->gf_tag = ReallocOrDie(msa->gf_tag, sizeof(char *) * msa->alloc_ngf); in MSAAddGF() 405 msa->gf_tag[msa->ngf] = sre_strdup(tag, -1); in MSAAddGF()
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H A D | msa.h | 147 char **gf_tag; /* markup tags for unparsed #=GF lines */ member
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H A D | stockholm.c | 366 fprintf(fp, "#=GF %-5s %s\n", msa->gf_tag[i], msa->gf[i]); in actually_write_stockholm()
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/dports/biology/infernal/infernal-1.1.3/easel/miniapps/ |
H A D | esl-alimerge.c | 822 …if(msaA[0]->gf_tag[j] == NULL) ESL_XFAIL(eslEINCONCEIVABLE, errbuf, "unexpectedly, GF tag %d of ms… in validate_and_copy_msa_annotation() 827 if(esl_strcmp(msaA[0]->gf_tag[j], msaA[ai]->gf_tag[j2]) == 0) { in validate_and_copy_msa_annotation() 829 if(esl_strcmp(msaA[0]->gf[j], msaA[ai]->gf_tag[j2]) != 0) { in validate_and_copy_msa_annotation() 836 … GF tag %s annotation from all alignments transferred to merged alignment.\n", msaA[0]->gf_tag[j]); in validate_and_copy_msa_annotation() 837 …if((status = esl_msa_AddGF(mmsa, msaA[0]->gf_tag[j], -1, msaA[0]->gf[j], -1)) != eslOK) goto ERRO… in validate_and_copy_msa_annotation() 840 …nment absent from >= 1 other alignments; not included in merged alignment.\n", msaA[0]->gf_tag[j]); in validate_and_copy_msa_annotation() 1721 maxgf = maxwidth(msa->gf_tag, msa->ngf); in write_pfam_msa_top() 1755 fprintf(fp, "#=GF %-*s %s\n", maxgf, msa->gf_tag[i], msa->gf[i]); in write_pfam_msa_top()
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H A D | esl-alimanip.c | 1175 if(msa->gf_tag[r] != NULL) free(msa->gf_tag[r]); in prune_msa_based_on_posteriors() 1178 if(msa->gf_tag != NULL) { free(msa->gf_tag); msa->gf_tag = NULL; } in prune_msa_based_on_posteriors() 2873 if(strcmp(minorA[m], msa->gf_tag[f]) == 0) { rf = msa->gf[f]; break; } in minorize_msa() 2875 …is of length %d but it must be equal to aln length (%" PRId64 ").", msa->gf_tag[f], (int) strlen(r… in minorize_msa() 2880 …he major alignment has a gap there! cmalign will choke on this.\n", msa->gf_tag[f], minor_msaA[m]-… in minorize_msa() 3078 esl_msa_AddGF(newmsa, msa->gf_tag[i], -1, msa->gf[i], -1); in add_gap_columns_to_msa()
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/dports/biology/hmmer/hmmer-3.3/easel/miniapps/ |
H A D | esl-alimerge.c | 822 …if(msaA[0]->gf_tag[j] == NULL) ESL_XFAIL(eslEINCONCEIVABLE, errbuf, "unexpectedly, GF tag %d of ms… in validate_and_copy_msa_annotation() 827 if(esl_strcmp(msaA[0]->gf_tag[j], msaA[ai]->gf_tag[j2]) == 0) { in validate_and_copy_msa_annotation() 829 if(esl_strcmp(msaA[0]->gf[j], msaA[ai]->gf_tag[j2]) != 0) { in validate_and_copy_msa_annotation() 836 … GF tag %s annotation from all alignments transferred to merged alignment.\n", msaA[0]->gf_tag[j]); in validate_and_copy_msa_annotation() 837 …if((status = esl_msa_AddGF(mmsa, msaA[0]->gf_tag[j], -1, msaA[0]->gf[j], -1)) != eslOK) goto ERRO… in validate_and_copy_msa_annotation() 840 …nment absent from >= 1 other alignments; not included in merged alignment.\n", msaA[0]->gf_tag[j]); in validate_and_copy_msa_annotation() 1721 maxgf = maxwidth(msa->gf_tag, msa->ngf); in write_pfam_msa_top() 1755 fprintf(fp, "#=GF %-*s %s\n", maxgf, msa->gf_tag[i], msa->gf[i]); in write_pfam_msa_top()
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H A D | esl-alimanip.c | 1175 if(msa->gf_tag[r] != NULL) free(msa->gf_tag[r]); in prune_msa_based_on_posteriors() 1178 if(msa->gf_tag != NULL) { free(msa->gf_tag); msa->gf_tag = NULL; } in prune_msa_based_on_posteriors() 2873 if(strcmp(minorA[m], msa->gf_tag[f]) == 0) { rf = msa->gf[f]; break; } in minorize_msa() 2875 …is of length %d but it must be equal to aln length (%" PRId64 ").", msa->gf_tag[f], (int) strlen(r… in minorize_msa() 2880 …he major alignment has a gap there! cmalign will choke on this.\n", msa->gf_tag[f], minor_msaA[m]-… in minorize_msa() 3078 esl_msa_AddGF(newmsa, msa->gf_tag[i], -1, msa->gf[i], -1); in add_gap_columns_to_msa()
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/dports/biology/infernal/infernal-1.1.3/easel/ |
H A D | esl_msa.h | 99 char **gf_tag; /* markup tags for unparsed #=GF lines */ member
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H A D | esl_msa.c | 334 ESL_ALLOC(new_msa->gf_tag, sizeof(char *) * msa->ngf); in esl_msa_Copy() 339 esl_strdup(msa->gf_tag[i], -1, &(new_msa->gf_tag[i])); in esl_msa_Copy() 479 n += esl_arr2_SSizeof(msa->gf_tag, msa->ngf); in esl_msa_Sizeof() 536 esl_arr2_Destroy((void **) msa->gf_tag, msa->ngf); in esl_msa_Destroy() 632 msa->gf_tag = NULL; in msa_create_mostly() 1596 ESL_REALLOC(msa->gf_tag, sizeof(char *) * n); in esl_msa_AddGF() 1601 if ((status = esl_memstrdup(tag, taglen, &(msa->gf_tag[msa->ngf]))) != eslOK) goto ERROR; in esl_msa_AddGF()
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H A D | esl_msafile2.c | 639 for(i = 0; i < msa->ngf; i++) maxgf = ESL_MAX(maxgf, strlen(msa->gf_tag[i])); in esl_msafile2_ReadInfoPfam()
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/dports/biology/hmmer/hmmer-3.3/easel/ |
H A D | esl_msa.h | 99 char **gf_tag; /* markup tags for unparsed #=GF lines */ member
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H A D | esl_msa.c | 334 ESL_ALLOC(new_msa->gf_tag, sizeof(char *) * msa->ngf); in esl_msa_Copy() 339 esl_strdup(msa->gf_tag[i], -1, &(new_msa->gf_tag[i])); in esl_msa_Copy() 479 n += esl_arr2_SSizeof(msa->gf_tag, msa->ngf); in esl_msa_Sizeof() 536 esl_arr2_Destroy((void **) msa->gf_tag, msa->ngf); in esl_msa_Destroy() 632 msa->gf_tag = NULL; in msa_create_mostly() 1596 ESL_REALLOC(msa->gf_tag, sizeof(char *) * n); in esl_msa_AddGF() 1601 if ((status = esl_memstrdup(tag, taglen, &(msa->gf_tag[msa->ngf]))) != eslOK) goto ERROR; in esl_msa_AddGF()
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H A D | esl_msafile2.c | 639 for(i = 0; i < msa->ngf; i++) maxgf = ESL_MAX(maxgf, strlen(msa->gf_tag[i])); in esl_msafile2_ReadInfoPfam()
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/dports/lang/php73/php-7.3.33/ext/intl/locale/ |
H A D | locale_methods.c | 122 static char* getPreferredTag(const char* gf_tag) in getPreferredTag() argument 127 grOffset = findOffset( LOC_GRANDFATHERED ,gf_tag); in getPreferredTag()
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/dports/www/mod_php81/php-8.1.1/ext/intl/locale/ |
H A D | locale_methods.c | 119 static char* getPreferredTag(const char* gf_tag) in getPreferredTag() argument 124 grOffset = findOffset( LOC_GRANDFATHERED ,gf_tag); in getPreferredTag()
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/dports/lang/php81/php-8.1.1/ext/intl/locale/ |
H A D | locale_methods.c | 119 static char* getPreferredTag(const char* gf_tag) in getPreferredTag() argument 124 grOffset = findOffset( LOC_GRANDFATHERED ,gf_tag); in getPreferredTag()
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/dports/lang/php74/php-7.4.27/ext/intl/locale/ |
H A D | locale_methods.c | 122 static char* getPreferredTag(const char* gf_tag) in getPreferredTag() argument 127 grOffset = findOffset( LOC_GRANDFATHERED ,gf_tag); in getPreferredTag()
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/dports/lang/php80/php-8.0.15/ext/intl/locale/ |
H A D | locale_methods.c | 119 static char* getPreferredTag(const char* gf_tag) in getPreferredTag() argument 124 grOffset = findOffset( LOC_GRANDFATHERED ,gf_tag); in getPreferredTag()
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/dports/devel/php73-intl/php-7.3.33/ext/intl/locale/ |
H A D | locale_methods.c | 122 static char* getPreferredTag(const char* gf_tag) in getPreferredTag() argument 127 grOffset = findOffset( LOC_GRANDFATHERED ,gf_tag); in getPreferredTag()
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/dports/devel/php74-intl/php-7.4.27/ext/intl/locale/ |
H A D | locale_methods.c | 122 static char* getPreferredTag(const char* gf_tag) in getPreferredTag() argument 127 grOffset = findOffset( LOC_GRANDFATHERED ,gf_tag); in getPreferredTag()
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/dports/devel/php81-intl/php-8.1.1/ext/intl/locale/ |
H A D | locale_methods.c | 119 static char* getPreferredTag(const char* gf_tag) in getPreferredTag() argument 124 grOffset = findOffset( LOC_GRANDFATHERED ,gf_tag); in getPreferredTag()
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/dports/www/mod_php73/php-7.3.33/ext/intl/locale/ |
H A D | locale_methods.c | 122 static char* getPreferredTag(const char* gf_tag) in getPreferredTag() argument 127 grOffset = findOffset( LOC_GRANDFATHERED ,gf_tag); in getPreferredTag()
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/dports/devel/php80-intl/php-8.0.15/ext/intl/locale/ |
H A D | locale_methods.c | 119 static char* getPreferredTag(const char* gf_tag) in getPreferredTag() argument 124 grOffset = findOffset( LOC_GRANDFATHERED ,gf_tag); in getPreferredTag()
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/dports/www/mod_php74/php-7.4.27/ext/intl/locale/ |
H A D | locale_methods.c | 122 static char* getPreferredTag(const char* gf_tag) in getPreferredTag() argument 127 grOffset = findOffset( LOC_GRANDFATHERED ,gf_tag); in getPreferredTag()
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/dports/www/mod_php80/php-8.0.15/ext/intl/locale/ |
H A D | locale_methods.c | 119 static char* getPreferredTag(const char* gf_tag) in getPreferredTag() argument 124 grOffset = findOffset( LOC_GRANDFATHERED ,gf_tag); in getPreferredTag()
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