From c9e66cc2870ea68f5a0905f9417a1935ae3a1ae1 Mon Sep 17 00:00:00 2001 From: mohamadi Date: Fri, 12 Oct 2018 15:15:45 -0700 Subject: [PATCH] README and version updated to 1.1.0 --- README.md | 5 +++-- configure.ac | 2 +- ntcard.cpp | 2 +- nthll.cpp | 4 ++-- 4 files changed, 7 insertions(+), 6 deletions(-) diff --git a/README.md b/README.md index 3b1e25b..35a0ce1 100644 --- a/README.md +++ b/README.md @@ -73,8 +73,9 @@ ntcard [OPTIONS] ... [FILE] Parameters: * `-k`, `--kmer=SIZE`: the length of *k*-mer `[64]` * `-t`, `--threads=N`: use N parallel threads `[1]` - * `-c`, `--cov=N`: the maximum coverage of *k*-mer in output `[64]` - * `-p`, `--pref=STRING`: the prefix for output file name `[freq]` + * `-c`, `--cov=N`: the maximum coverage of *k*-mer in output `[1000]` + * `-p`, `--pref=STRING`: the prefix for output file names `[freq]` + * `-o`, `--output=STRING`: the name for single output file name (can be used only for single compact output file)` * `FILE`: input file or set of files seperated by space, in fasta, fastq, sam, and bam formats. The files can also be in compressed (`.gz`, `.bz2`, `.xz`) formats . A list of files containing file names in each row can be passed with `@` prefix. For example to run ntcard on a test file `reads.fastq` with `k=50`: diff --git a/configure.ac b/configure.ac index 66dcdf1..e9d4641 100644 --- a/configure.ac +++ b/configure.ac @@ -1,5 +1,5 @@ AC_PREREQ(2.62) -AC_INIT(NTCARD, 1.0.1, hmohamadi@bcgsc.ca, ntcard, +AC_INIT(NTCARD, 1.1.0, hmohamadi@bcgsc.ca, ntcard, https://github.com/bcgsc/ntCard) # add 'foreign' to allow README.md instead of README AM_INIT_AUTOMAKE([foreign subdir-objects]) diff --git a/ntcard.cpp b/ntcard.cpp index 158dc42..047771c 100644 --- a/ntcard.cpp +++ b/ntcard.cpp @@ -18,7 +18,7 @@ #define PROGRAM "ntcard" static const char VERSION_MESSAGE[] = - PROGRAM " Version 1.0.2 \n" + PROGRAM " Version 1.1.0 \n" "Written by Hamid Mohamadi.\n" "Copyright 2018 Canada's Michael Smith Genome Science Centre\n"; diff --git a/nthll.cpp b/nthll.cpp index d4a75dd..6ebbcf7 100644 --- a/nthll.cpp +++ b/nthll.cpp @@ -18,9 +18,9 @@ #define PROGRAM "nthll" static const char VERSION_MESSAGE[] = - PROGRAM " Version 1.0.0 \n" + PROGRAM " Version 1.1.0 \n" "Written by Hamid Mohamadi.\n" - "Copyright 2016 Canada's Michael Smith Genome Science Centre\n"; + "Copyright 2018 Canada's Michael Smith Genome Science Centre\n"; static const char USAGE_MESSAGE[] = "Usage: " PROGRAM " [OPTION]... FILES...\n"