Transfer raw sequencing data to backup Andromeda folder

This post details transfer of raw files for sequencing projects to hputnam KITT folder on Andromeda as an additional backup.

Folders:

Mcap 2020

  • TagSeq/ITS2/16S: 20211219_Mcapitata_OntogenyTimeseries at /data/putnamlab/KITT/hputnam/20211219_Mcapitata_OntogenyTimeseries

Mcap 2023

  • RNASeq: 20240220_Mcapitata_LarvalTolerance at /data/putnamlab/KITT/hputnam/20240220_Mcapitata_LarvalTolerance

Mcap2020

Log onto Andromeda and navigate to hputnam KITT folder where raw data needs to live.

cd /data/putnamlab/KITT/hputnam/20211219_Mcapitata_OntogenyTimeseries
mkdir tagseq
mkdir ITS2
mkdir 16S

Project folder: /data/putnamlab/KITT/hputnam/20211219_Mcapitata_OntogenyTimeseries

TagSeq: /data/putnamlab/KITT/hputnam/20211219_Mcapitata_OntogenyTimeseries/tagseq ITS2: /data/putnamlab/KITT/hputnam/20211219_Mcapitata_OntogenyTimeseries/ITS2 16S: /data/putnamlab/KITT/hputnam/20211219_Mcapitata_OntogenyTimeseries/16S

TagSeq file transfer

cp /data/putnamlab/ashuffmyer/mcap-2020-tagseq/sequences/*fastq.gz /data/putnamlab/KITT/hputnam/20211219_Mcapitata_OntogenyTimeseries/tagseq

cp /data/putnamlab/ashuffmyer/mcap-2020-tagseq/sequences/md5.original /data/putnamlab/KITT/hputnam/20211219_Mcapitata_OntogenyTimeseries/tagseq

ITS2 file transfer

cp /data/putnamlab/ashuffmyer/AH_MCAP_ITS2/raw_data/md5.seqs /data/putnamlab/KITT/hputnam/20211219_Mcapitata_OntogenyTimeseries/ITS2

cp /data/putnamlab/ashuffmyer/AH_MCAP_ITS2/raw_data/*.fastq.gz /data/putnamlab/KITT/hputnam/20211219_Mcapitata_OntogenyTimeseries/ITS2

16S file transfer

cp /data/putnamlab/ashuffmyer/AH_MCAP_16S/raw_data/*fastq.gz /data/putnamlab/KITT/hputnam/20211219_Mcapitata_OntogenyTimeseries/16S

cp /data/putnamlab/ashuffmyer/AH_MCAP_16S/raw_data/md5.seqs /data/putnamlab/KITT/hputnam/20211219_Mcapitata_OntogenyTimeseries/16S

Done on 17 May 2024.

Mcap2023

Log onto Andromeda and navigate to hputnam KITT folder where raw data needs to live.

Project folder: /data/putnamlab/KITT/hputnam/20240220_Mcapitata_LarvalTolerance

RNASeq: /data/putnamlab/KITT/hputnam/20240220_Mcapitata_LarvalTolerance/rna_seq

RNA-seq file transfer

cd /data/putnamlab/KITT/hputnam/20240220_Mcapitata_LarvalTolerance

mkdir rna_seq #make RNASeq folder 
cd rna_seq

mkdir second_delivery #make a file for second sequence delivery

Copy in raw .fastq files

cp /data/putnamlab/ashuffmyer/mcap-2023-rnaseq/raw-sequences/*.fastq.gz /data/putnamlab/KITT/hputnam/20240220_Mcapitata_LarvalTolerance/rna_seq

cp /data/putnamlab/ashuffmyer/mcap-2023-rnaseq/raw-sequences/second_sequencing/*.fastq.gz /data/putnamlab/KITT/hputnam/20240220_Mcapitata_LarvalTolerance/rna_seq/second_delivery

Copy in original .md5 files

cp /data/putnamlab/ashuffmyer/mcap-2023-rnaseq/raw-sequences/md5_files/*.md5 /data/putnamlab/KITT/hputnam/20240220_Mcapitata_LarvalTolerance/rna_seq

cp /data/putnamlab/ashuffmyer/mcap-2023-rnaseq/raw-sequences/second_sequencing/md5_files/*.md5 /data/putnamlab/KITT/hputnam/20240220_Mcapitata_LarvalTolerance/rna_seq/second_delivery

Done on 17 May 2024.

Written on May 17, 2024