silvtal

#!/usr/bin/env python3
# -*- coding: utf-8 -*-
"""
Created on Wed Sep 28 17:14:18 2022

@author: silvia

@description: sometimes qiime input (for pick_otus.py) is too heavy of a file.
Therefore you need to split it and obtain several output OTU files. But you can't
just paste together the outputs again, since it would mean repeated OTU IDs. So...

silvtal

source_folder="old_results_2023-04-13"
destination_folder="new_results_2023-05-30"

for file in "$source_folder"/*; do
  filename=$(basename "$file")
  destination_file="$destination_folder/$filename"

  if [[ -e "$destination_file" ]]; then
    source_size=$(stat -c%s "$file")
    destination_size=$(stat -c%s "$destination_file")

silvtal

#!/bin/bash
## BASED ON : https://www.baeldung.com/linux/split-file-at-line-numbers
INPUT_FILE="out/experimental_reads.wig"  # The input file
LINE_NUMBERS=( $(cat $INPUT_FILE | grep -n "g" | cut -f 1 -d":"  | tr '\n' ' ') ) # The given line numbers (array)
START=1                 # The offset to calculate lines
IDX=1                   # The index used in the name of generated files: file1, file2 ...

for i in "${LINE_NUMBERS[@]}"
do
    # Extract the lines using the head and tail commands

silvtal

#include <stdlib.h>
#include <stdio.h>
#include <string.h>

int main(int argc,char** argv)
{
int span=1;
int start=0;
int step=0;
char line[BUFSIZ];