<分区>
我有一个文件，第一行包含一系列字段，制表符分隔 ( \t )。我正在尝试遍历这些行并将某些字段用作程序的变量。到目前为止，我的代码如下:
{
A=$(head -1 id_table.txt)
read;
while IFS='\t' read $A;
do
echo 'downloading '$SRA_Sample_s
echo $tissue_s
#out_dir=`echo $tissue_s | sed 's/ /./g'` #Replacing spaces by dots
#/soft/bio/sequence/sratoolkit-2.3.4-2/bin/fastq-dump.2.3.4 --split-3 --outdir $out_dir --ncbi_error_report $SRA_Sample_s
done
} <./id_table.txt
输出(错误):
downloading _s Inser
downloading provided> <no
downloading provided> <no
downloading provided> <no
它失败了，因为它没有正确获取字段。也许 <>人物正在制造困惑？不同文件的列名称顺序不同，并且某些文件中缺少某些列。我被困在这里了。
文件看起来像这样:
BioSample_s MBases_l MBytes_l Run_s SRA_Sample_s Sample_Name_s age_s breed_s sex_s Assay_Type_s AssemblyName_s BioProject_s BioSampleModel_s Center_Name_s Consent_s InsertSize_l Library_Name_s Platform_s SRA_Study_s biomaterial_provider_s g1k_analysis_group_s g1k_pop_code_s source_s tissue_s
SAMN02777951 4698 3249 SRR1287653 SRS607026 SL01 19 SL01 female RNA-Seq <not provided> PRJNA247712 Model organism or animal SICHUAN UNIVERSITY public 200 <not provided> ILLUMINA SRP041998 Chengdu Research Base of Giant Panda Breeding <not provided> <not provided> <not provided> blood
SAMN02777952 4451 3063 SRR1287654 SRS607028 XB01 12 XB01 male RNA-Seq <not provided> PRJNA247712 Model organism or animal SICHUAN UNIVERSITY public 200 <not provided> ILLUMINA SRP041998 Chengdu Research Base of Giant Panda Breeding <not provided> <not provided> <not provided> blood
SAMN02777953 4553 3139 SRR1287655 SRS607025 XB02 6 XB02 female RNA-Seq <not provided> PRJNA247712 Model organism or animal SICHUAN UNIVERSITY public 200 <not provided> ILLUMINA SRP041998 Chengdu Research Base of Giant Panda Breeding <not provided> <not provided> <not provided> blood