From de835351cfd3388133344fc1bb0a261c0e7bf3c8 Mon Sep 17 00:00:00 2001 From: tpollina Date: Sun, 1 Dec 2019 18:35:02 -0800 Subject: [PATCH] Create test.htmll --- test.htmll | 56 ++++++++++++++++++++++++++++++++++++++++++++++++++++++ 1 file changed, 56 insertions(+) create mode 100644 test.htmll diff --git a/test.htmll b/test.htmll new file mode 100644 index 0000000..806cda4 --- /dev/null +++ b/test.htmll @@ -0,0 +1,56 @@ +cat "/media/tpollina/ACQUISITION/PlanktonScope_V2/exp_new_03/"$folder"/OBJECTS/ecotaxa_size_mesurement.tsv" | head -n 1 > /home/tpollina/Desktop/day_night_pyro/table.tsv +for folder in 0 1 10 11 14 15 17 18 2 20 21 23 24 25 26 27 28 29 3 30 31 32 33 34 35 36 37 38 39 4 40 41 42 43 44 45 46 47 48 49 5 50 51 52 53 54 55 56 57 6 7 9 +do + cat "/media/tpollina/ACQUISITION/PlanktonScope_V2/exp_new_03/"$folder"/OBJECTS/ecotaxa_size_mesurement.tsv" | tail -n +3 >> /home/tpollina/Desktop/day_night_pyro/table.tsv + cp /media/tpollina/ACQUISITION/PlanktonScope_V2/exp_new_03/$folder/OBJECTS/*.jpg /home/tpollina/Desktop/day_night_pyro/ +done + +cat /home/tpollina/Desktop/day_night_pyro/table.tsv | head -n 1 > /home/tpollina/Desktop/day_night_pyro/simplified.tsv + +#!/bin/bash +for i in $( ls *.jpg); do + grep $i table.tsv >> /home/tpollina/Desktop/day_night_pyro/simplified.tsv +done + + +cat "/media/tpollina/TPOLLINA_WORK1/PLANKTOSCOPE/ACQUISITION/ENVIRONNEMENTAL_SAMPLES/CHILE/Chile_EXPORT/CHILE_DAY2_ST4_D9_2/ecotaxa_size_mesurement.tsv" | head -n 1 > /media/tpollina/TPOLLINA_WORK1/PLANKTOSCOPE/ACQUISITION/ENVIRONNEMENTAL_SAMPLES/CHILE/figure_5_analysis_chile.tsv + +for replicat in 1 2 +do + for depth in 0 1 2 3 4 5 6 7 8 9 10 + do + cat "/media/tpollina/TPOLLINA_WORK1/PLANKTOSCOPE/ACQUISITION/ENVIRONNEMENTAL_SAMPLES/CHILE/Chile_EXPORT/CHILE_DAY2_ST4_D"$depth"_"$replicat"/ecotaxa_size_mesurement.tsv" | tail -n +3 >> /media/tpollina/TPOLLINA_WORK1/PLANKTOSCOPE/ACQUISITION/ENVIRONNEMENTAL_SAMPLES/CHILE/figure_5_analysis_chile.tsv + done +done + + +for replicat in 1 2 +do + for depth in 0 1 2 3 4 5 6 7 8 9 10 + do + echo $depth + cat "/media/tpollina/TPOLLINA_WORK1/PLANKTOSCOPE/ACQUISITION/ENVIRONNEMENTAL_SAMPLES/CHILE/Chile_EXPORT/CHILE_DAY2_ST4_D"$depth"_"$replicat"/ecotaxa_size_mesurement.tsv" | tail -n +3 | awk '{ total += $41; count++ } END { print total/count }' >> /media/tpollina/TPOLLINA_WORK1/PLANKTOSCOPE/ACQUISITION/ENVIRONNEMENTAL_SAMPLES/CHILE/mean_eccentricity.tsv + done +done + +for replicat in 1 2; do + for depth in 0 1 2 3 4 5 6 7 8 9 10; do + echo $depth + cp "/media/tpollina/TPOLLINA_WORK1/PLANKTOSCOPE/ACQUISITION/ENVIRONNEMENTAL_SAMPLES/CHILE/Chile_EXPORT/CHILE_DAY2_ST4_D"$depth"_"$replicat"/" + done +done + + +for depth in 0 1 2 3 4 5 6 7 8 9 10; do + for obj in $(cat table.csv | grep $depth | awk -F ',' '{print $2}'); do + cp "/media/tpollina/TPOLLINA_WORK1/PLANKTOSCOPE/ACQUISITION/ENVIRONNEMENTAL_SAMPLES/CHILE/Chile_EXPORT/CHILE_DAY2_ST4_D"$depth"_"0"/"$obj . + cp "/media/tpollina/TPOLLINA_WORK1/PLANKTOSCOPE/ACQUISITION/ENVIRONNEMENTAL_SAMPLES/CHILE/Chile_EXPORT/CHILE_DAY2_ST4_D"$depth"_"1"/"$obj . + done +done +for replicat in 1 2; do + for depth in 0 1 2 3 4 5 6 7 8 9 10; do + echo "cp CHILE_DAY2_ST4_D"$depth"_"$replicat"/*.jpg" ALL_OBJECTS/ + done +done + +