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StevenWingett / HiCUP

Hi-C data processing pipeline
GNU Lesser General Public License v3.0
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index error #75

Closed TakatoG closed 1 year ago

TakatoG commented 1 year ago

Hi, I made configuration file, and run HiCUP. Then the error massage is always as follows. HiCUP-0.8.3/hicup --config HiCUP-0.8.3/config_files/hicup_example.conf Starting HiCUP pipeline (v0.8.3) PLEASE NOTE: FROM VERSION 8, HICUP REQUIRES THE R PACKAGES TIDYVERSE AND PLOTLY INSTALLED SEE DOCUMENTATION FOR MORE DETAILS bowtie2 index file '/Users/takato/mm10.1.bt2' does not exist bowtie2 index file '/Users/takato/mm10.2.bt2' does not exist bowtie2 index file '/Users/takato/mm10.3.bt2' does not exist bowtie2 index file '/Users/takato/mm10.4.bt2' does not exist bowtie2 index file '/Users/takato/mm10.rev.1.bt2' does not exist bowtie2 index file '/Users/takato/mm10.rev.2.bt2' does not exist Detecting R automatically Found R at '/opt/homebrew/bin/R' Please change configuration file and/or command-line parameters and/or installation accordingly

Do you know how to solve problem?

StevenWingett commented 1 year ago

Hi,

HiCUP is warning you that a Bowtie2 index file does not exist.

What happens if you type in the command line:

ls /Users/takato/mm10.rev.1.bt2

Does it find the file?

TakatoG commented 1 year ago

Hi, thank you for your reply! Actually it was my mistake. I solved yesterday!