seg fault with make.file

mothur bugs
1

Hi Sarah

new error. seg fault for make.file in 1.39.4. it works fine in 1.38.1


I wrote this for loop to download my seqs directly from basemount to the server (before I was downloading through basespace, running make.file on my laptop, then moving to the server) ```text p=PROJECTNAME mkdir -p $p/fastq for f in basespace/Projects/$p/Samples/*/Files/*.gz; do s=${f##basespace/Projects/$p/Samples/}; s=${s%%/*}; cp $f $p"/fastq/"$s"."${f##*Files/}; done ```
2 
Linux version

Using ReadLine

Running 64Bit Version

mothur v.1.39.4
Last updated: 3/6/2017

by
Patrick D. Schloss

Department of Microbiology & Immunology
University of Michigan
http://www.mothur.org

When using, please cite:
Schloss, P.D., et al., Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol, 2009. 75(23):7537-41.

Distributed under the GNU General Public License

Type 'help()' for information on the commands that are available

For questions and analysis support, please visit our forum at https://www.mothur.org/forum

Type 'quit()' to exit program
Interactive Mode


mothur > make.file(inputdir=fastq/)
Setting input directory to: fastq/
mothur.1490117547.logfile (END)
3

Thanks for reporting this. The issue is fixed in 1.39.5, https://github.com/mothur/mothur/releases/tag/v1.39.5.