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tseemann / nullarbor

:floppy_disk: :page_with_curl: "Reads to report" for public health and clinical microbiology
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make again - can't find pipeline instruction file/s #260

Closed sharbie88 closed 4 years ago

sharbie88 commented 4 years ago

I've had to remove an isolate from an existing run. I've #-marked the isolate to remove it from the list of samples and run a make preview which was all good. make again gave me the pipeline instruction nice make all -j 2 -l 4 -C 402_NZAK3_191114 2>&1 | tee -a 402_NZAK3_191114/nullarbor.log which I ran, but I get the message:

nice make all -j 2 -l 4 -C 402_NZAK3_191114 2>&1 | tee -a 402_NZAK3_191114/nullarbor.log
tee: 402_NZAK3_191114/nullarbor.log: No such file or directory
make: *** 402_NZAK3_191114: No such file or directory.  Stop.

I've attached the makefile and .log file if that helps. Makefile.txt nullarbor.zip

tseemann commented 4 years ago

You need to go back to the main nullarbor folder first.

make again
cd ..
nice make all -j 2 -l 4 -C 402_NZAK3_191114 2>&1 | tee -a 402_NZAK3_191114/nullarbor.log