diff --git a/CHANGELOG b/CHANGELOG index b43e1a7..d0c92ad 100755 --- a/CHANGELOG +++ b/CHANGELOG @@ -27,7 +27,7 @@ metaWRAP v=1.3 (In development) metaWRAP v=1.2 (April 2019) General - config-metawrap sets database locations to $HOME by defualt during installation + config-metawrap sets database locations to $HOME by default during installation numpy, openblas, and scipy versions updated for concoct 1.0 enforce CheckM v1.0.12 (newer versions are reported to fail) fixed depricated matplotlib functions in plotting scripts @@ -288,7 +288,7 @@ metaWRAP v=0.3 (November 2017) Fixed issue with program thinking READQC did not finish correctly Assembly module: Removed joint assembly feature. Now you can only assemble with metaSPAdes OR Megahit. - (megahit is defualt due to its speed) + (megahit is default due to its speed) Changed minimum contig length from 500bp to 1000bp Binning module: This module is now split into four parts for modularity: diff --git a/README.md b/README.md index 634c1d9..eebc16d 100755 --- a/README.md +++ b/README.md @@ -187,7 +187,7 @@ Options: -2 STR reverse fastq reads -o STR output directory -m INT memory in GB (default=10) - -t INT number of threads (defualt=1) + -t INT number of threads (default=1) --use-megahit assemble with megahit (default) --use-metaspades assemble with metaspades instead of megahit diff --git a/bin/metawrap-modules/assembly.sh b/bin/metawrap-modules/assembly.sh index 5dade0c..a946023 100755 --- a/bin/metawrap-modules/assembly.sh +++ b/bin/metawrap-modules/assembly.sh @@ -23,7 +23,7 @@ help_message () { echo " -2 STR reverse fastq reads" echo " -o STR output directory" echo " -m INT memory in GB (default=24)" - echo " -t INT number of threads (defualt=1)" + echo " -t INT number of threads (default=1)" echo " -l INT minimum length of assembled contigs (default=1000)" echo "" echo " --megahit assemble with megahit (default)" diff --git a/bin/metawrap-modules/binning.sh b/bin/metawrap-modules/binning.sh index a3f7b5d..3f8ebb7 100755 --- a/bin/metawrap-modules/binning.sh +++ b/bin/metawrap-modules/binning.sh @@ -6,7 +6,7 @@ # Ideally it should take in the assembly file of all of your samples, followed by the reads of all the samples that went into the assembly. # The more samples, the better the binning. # -# The script uses metaBAT2 and/or CONCOCT and/or MaxBin2 to bin the contigs. MetaBAT2 is the defualt due to its speed and great performance, +# The script uses metaBAT2 and/or CONCOCT and/or MaxBin2 to bin the contigs. MetaBAT2 is the default due to its speed and great performance, # but all these binners have their advantages and disadvantages, so it recomended to run the bin_refinement module to QC the bins, get the # best bins of all of each method, and to reassembly and refine the final bins. #