I'm assembling using abyss-pe installed via apt-get on an ubuntu build (16) and I'm getting a make error. The command run is:
abyss-pe -n v=-v -C tset np=4 k=96 name=test lib='1A18s_S1_L001 2A18s_S2_L001 \
2B18s_S10_L001 3A18s_S3_L001 3B18s_S11_L001 4A18s_S4_L001 \
4B18s_S12_L001 5A18s_S5_L001 5B18s_S9_L001 6A18s_S6_L001 \
7A18s_S7_L001 8A18s_S8_L001' \
1A18s_S1_L001='1A18s_S1_L001_R1_001.fastq 1A18s_S1_L001_R2_001.fastq' \
2A18s_S2_L001='2A18s_S2_L001_R1_001.fastq 2A18s_S2_L001_R2_001.fastq' \
2B18s_S10_L001='2B18s_S10_L001_R1_001.fastq 2B18s_S10_L001_R2_001.fastq' \
3A18s_S3_L001='3A18s_S3_L001_R1_001.fastq 3A18s_S3_L001_R2_001.fastq' \
3B18s_S11_L001='3B18s_S11_L001_R1_001.fastq 3B18s_S11_L001_R2_001.fastq' \
4A18s_S4_L001='4A18s_S4_L001_R1_001.fastq 4A18s_S4_L001_R2_001.fastq' \
4B18s_S12_L001='4B18s_S12_L001_R1_001.fastq 4B18s_S12_L001_R2_001.fastq' \
5A18s_S5_L001='5A18s_S5_L001_R1_001.fastq 5A18s_S5_L001_R2_001.fastq' \
5B18s_S9_L001='5B18s_S9_L001_R1_001.fastq 5B18s_S9_L001_R2_001.fastq' \
6A18s_S6_L001='6A18s_S6_L001_R1_001.fastq 6A18s_S6_L001_R2_001.fastq' \
7A18s_S7_L001='7A18s_S7_L001_R1_001.fastq 7A18s_S7_L001_R2_001.fastq' \
8A18s_S8_L001='8A18s_S8_L001_R1_001.fastq 8A18s_S8_L001_R2_001.fastq'
I'm getting an error when a make is called on the second library in the list
make: * No rule to make target '2A18s_S2_L001'. Stop.
I've tested to see if there is an error caused by each library starting with a number but that didn't fix anything. Any help would be appreciated.
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