[med-svn] [genometools] 02/02: fix spelling issues
Sascha Steinbiss
satta at debian.org
Fri Jan 6 09:57:32 UTC 2017
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satta pushed a commit to branch master
in repository genometools.
commit caa8213bc9e4f053a8678609ff5c415da1fa83d3
Author: Sascha Steinbiss <sascha at steinbiss.name>
Date: Fri Jan 6 10:57:25 2017 +0100
fix spelling issues
---
debian/changelog | 1 +
debian/patches/series | 1 +
debian/patches/spelling.patch | 117 ++++++++++++++++++++++++++++++++++++++++++
3 files changed, 119 insertions(+)
diff --git a/debian/changelog b/debian/changelog
index 50d7058..f0ac9a5 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -2,6 +2,7 @@ genometools (1.5.9+ds-4) unstable; urgency=medium
* Switch asciidoc dependency to asciidoc-base.
Closes: #850341
+ * Fix minor spelling issues in help output.
-- Sascha Steinbiss <satta at debian.org> Fri, 06 Jan 2017 10:13:08 +0100
diff --git a/debian/patches/series b/debian/patches/series
index 62b5eaa..39567bb 100644
--- a/debian/patches/series
+++ b/debian/patches/series
@@ -8,3 +8,4 @@ split-manuals
use-mx32
gtdoc-traverse-sorted
ignore-m32-m64.patch
+spelling.patch
diff --git a/debian/patches/spelling.patch b/debian/patches/spelling.patch
new file mode 100644
index 0000000..531f95f
--- /dev/null
+++ b/debian/patches/spelling.patch
@@ -0,0 +1,117 @@
+Description: fix minor spelling issues
+Author: Sascha Steinbiss <satta at debian.org>
+--- a/src/extended/condenseq_creator.c
++++ b/src/extended/condenseq_creator.c
+@@ -1723,7 +1723,7 @@
+ if (!had_err) {
+ if (gt_showtime_enabled())
+ gt_timer_show_progress(timer, "write data, alphabet", stderr);
+- gt_log_log(GT_WU " kmer positons in final kmer_db",
++ gt_log_log(GT_WU " kmer positions in final kmer_db",
+ gt_kmer_database_get_kmer_count(condenseq_creator->kmer_db));
+ gt_log_log(GT_WU " xdrop calls.", ces_c_xdrops);
+ gt_log_log(GT_WU " uniques", condenseq_creator->ces->udb_nelems);
+--- a/src/extended/intset.h
++++ b/src/extended/intset.h
+@@ -74,7 +74,7 @@
+ size_t gt_intset_best_memory_size(GtUword maxelement, GtUword num_of_elems);
+
+ /* Write <intset> to file <fp>. Fails with exit on IO-error. Returns NULL if
+- data error occures and writes it to <err>, <intset> will be deleted at that
++ data error occurs and writes it to <err>, <intset> will be deleted at that
+ point. */
+ GtIntset* gt_intset_write(GtIntset *intset, FILE *fp, GtError *err);
+
+--- a/src/extended/wtree_encseq.c
++++ b/src/extended/wtree_encseq.c
+@@ -84,7 +84,7 @@
+
+ if (bit == 0) {
+ pos = gt_compressed_bitsequence_rank_0(we->c_bits, node_start + pos) -
+- zero_rank_prefix - 1; /*convert count (rank) to positon */
++ zero_rank_prefix - 1; /*convert count (rank) to position */
+ alpha_end = middle;
+ node_start += we->parent_instance.members->length;
+ node_size = left_child_size;
+@@ -96,7 +96,7 @@
+ one_rank_prefix =
+ gt_compressed_bitsequence_rank_1(we->c_bits, node_start - 1);
+ pos = gt_compressed_bitsequence_rank_1(we->c_bits, node_start + pos) -
+- one_rank_prefix - 1; /*convert count (rank) to positon */
++ one_rank_prefix - 1; /*convert count (rank) to position */
+ alpha_start = middle + 1;
+ node_size =
+ gt_compressed_bitsequence_rank_1(we->c_bits,
+--- a/src/match/seqabstract.h
++++ b/src/match/seqabstract.h
+@@ -71,7 +71,7 @@
+ /* return the length of <sa> */
+ GtUword gt_seqabstract_length(const GtSeqabstract *sa);
+
+-/* return character at positon <idx> (relative to <startpos>) of <sa> */
++/* return character at position <idx> (relative to <startpos>) of <sa> */
+ GtUchar gt_seqabstract_encoded_char(const GtSeqabstract *sa,
+ GtUword idx);
+
+--- a/src/match/sfx-diffcov.c
++++ b/src/match/sfx-diffcov.c
+@@ -491,7 +491,7 @@
+ return countderived;
+ }
+
+-static int dc_compareCodeatpositon(const void *vala,const void *valb)
++static int dc_compareCodeatposition(const void *vala,const void *valb)
+ {
+ const Codeatposition *a = (const Codeatposition *) vala;
+ const Codeatposition *b = (const Codeatposition *) valb;
+@@ -516,7 +516,7 @@
+ return 0;
+ }
+
+-static void dc_validate_samplepositons(const GtDifferencecover *dcov)
++static void dc_validate_samplepositions(const GtDifferencecover *dcov)
+ {
+ GtUword pos;
+ unsigned int modvalue;
+@@ -1268,7 +1268,7 @@
+ gt_assert(codelist.spaceCodeatposition != NULL);
+ qsort(codelist.spaceCodeatposition,
+ (size_t) codelist.nextfreeCodeatposition,
+- sizeof (*codelist.spaceCodeatposition),dc_compareCodeatpositon);
++ sizeof (*codelist.spaceCodeatposition),dc_compareCodeatposition);
+ }
+ if (dcov->effectivesamplesize > 0)
+ {
+@@ -1690,7 +1690,7 @@
+ printf("v=%u (size=%u)\n",dcov->vparam,dcov->size);
+ if (withcheck)
+ {
+- dc_validate_samplepositons(dcov);
++ dc_validate_samplepositions(dcov);
+ }
+ dc_differencecover_sortsample(dcov,NULL,NULL,NULL,withcheck);
+ gt_differencecover_delete(dcov);
+--- a/src/tools/gt_kmer_database.c
++++ b/src/tools/gt_kmer_database.c
+@@ -126,8 +126,8 @@
+ gt_option_exclude(option_mean_cutoff, option);
+
+ /* -disable_prune */
+- option = gt_option_new_bool("disable_prune", "disables the removel of kmers, "
+- "which occure more often than the cutoff.",
++ option = gt_option_new_bool("disable_prune", "disables the removal of kmers "
++ "which occur more often than the cutoff.",
+ &arguments->prune, false);
+ gt_option_parser_add_option(op, option);
+ gt_option_imply(option, option_use_cutoff);
+--- a/src/tools/gt_show_seedext.c
++++ b/src/tools/gt_show_seedext.c
+@@ -119,7 +119,7 @@
+
+ /* -sort */
+ op_sortmatches = gt_option_new_bool("sort","sort matches in ascending order "
+- "of their end positon on the "
++ "of their end position on the "
+ "query",
+ &arguments->sortmatches,false);
+ gt_option_parser_add_option(op, op_sortmatches);
--
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