How to combine and sort two files using join?
NOTE: I posted this issue earlier, and got a response. However, for some reason, my computer now refuses to produce the desired file with the first command.
I have two large files that I want to somehow sort and combine into one file. I tried the following command without success.
join -j2 <(sort -k2 File1.txt) <(sort -k2 File2.txt) > jointext.txt
The tab-separated File1 looks like this:
VVP2U_05184_04282 o220
1RDD4_05032_01689 o132
VP2U_04029_05122 o216
1RDD4_03904_05227 o132
File2, delimited by white space, looks like this.
VVP2U_05184_04282,"root;cellular organisms;kingdom;phylum;class;"
1RDD4_05032_01689,"root;cellular organisms;kingdom;phylum;class;"
VVP2U_04029_05122,"root;cellular organisms;kingdom;phylum;class;"
1RDD4_03904_05227,"root;cellular organisms;kingdom;phylum;class;"
The desired final file should look like:
VVP2U_05184_04282,"root;cellular organisms;kingdom;phylum;class;",o220
1RDD4_05032_01689,"root;cellular organisms;kingdom;phylum;class;",o132
VVP2U_04029_05122,"root;cellular organisms;kingdom;phylum;class;",o216
1RDD4_03904_05227,"root;cellular organisms;kingdom;phylum;class;",o132
join
asked Nov 27 '18 at 7:41
Camouf0079Camouf0079
63
add a comment |
NOTE: I posted this issue earlier, and got a response. However, for some reason, my computer now refuses to produce the desired file with the first command.
I have two large files that I want to somehow sort and combine into one file. I tried the following command without success.
join -j2 <(sort -k2 File1.txt) <(sort -k2 File2.txt) > jointext.txt
The tab-separated File1 looks like this:
VVP2U_05184_04282 o220
1RDD4_05032_01689 o132
VP2U_04029_05122 o216
1RDD4_03904_05227 o132
File2, delimited by white space, looks like this.
VVP2U_05184_04282,"root;cellular organisms;kingdom;phylum;class;"
1RDD4_05032_01689,"root;cellular organisms;kingdom;phylum;class;"
VVP2U_04029_05122,"root;cellular organisms;kingdom;phylum;class;"
1RDD4_03904_05227,"root;cellular organisms;kingdom;phylum;class;"
The desired final file should look like:
VVP2U_05184_04282,"root;cellular organisms;kingdom;phylum;class;",o220
1RDD4_05032_01689,"root;cellular organisms;kingdom;phylum;class;",o132
VVP2U_04029_05122,"root;cellular organisms;kingdom;phylum;class;",o216
1RDD4_03904_05227,"root;cellular organisms;kingdom;phylum;class;",o132
join
asked Nov 27 '18 at 7:41
Camouf0079Camouf0079
63
add a comment |
NOTE: I posted this issue earlier, and got a response. However, for some reason, my computer now refuses to produce the desired file with the first command.
I have two large files that I want to somehow sort and combine into one file. I tried the following command without success.
join -j2 <(sort -k2 File1.txt) <(sort -k2 File2.txt) > jointext.txt
The tab-separated File1 looks like this:
VVP2U_05184_04282 o220
1RDD4_05032_01689 o132
VP2U_04029_05122 o216
1RDD4_03904_05227 o132
File2, delimited by white space, looks like this.
VVP2U_05184_04282,"root;cellular organisms;kingdom;phylum;class;"
1RDD4_05032_01689,"root;cellular organisms;kingdom;phylum;class;"
VVP2U_04029_05122,"root;cellular organisms;kingdom;phylum;class;"
1RDD4_03904_05227,"root;cellular organisms;kingdom;phylum;class;"
The desired final file should look like:
VVP2U_05184_04282,"root;cellular organisms;kingdom;phylum;class;",o220
1RDD4_05032_01689,"root;cellular organisms;kingdom;phylum;class;",o132
VVP2U_04029_05122,"root;cellular organisms;kingdom;phylum;class;",o216
1RDD4_03904_05227,"root;cellular organisms;kingdom;phylum;class;",o132
join
asked Nov 27 '18 at 7:41
Camouf0079Camouf0079
63
NOTE: I posted this issue earlier, and got a response. However, for some reason, my computer now refuses to produce the desired file with the first command.
I have two large files that I want to somehow sort and combine into one file. I tried the following command without success.
join -j2 <(sort -k2 File1.txt) <(sort -k2 File2.txt) > jointext.txt
The tab-separated File1 looks like this:
VVP2U_05184_04282 o220
1RDD4_05032_01689 o132
VP2U_04029_05122 o216
1RDD4_03904_05227 o132
File2, delimited by white space, looks like this.
VVP2U_05184_04282,"root;cellular organisms;kingdom;phylum;class;"
1RDD4_05032_01689,"root;cellular organisms;kingdom;phylum;class;"
VVP2U_04029_05122,"root;cellular organisms;kingdom;phylum;class;"
1RDD4_03904_05227,"root;cellular organisms;kingdom;phylum;class;"
The desired final file should look like:
VVP2U_05184_04282,"root;cellular organisms;kingdom;phylum;class;",o220
1RDD4_05032_01689,"root;cellular organisms;kingdom;phylum;class;",o132
VVP2U_04029_05122,"root;cellular organisms;kingdom;phylum;class;",o216
1RDD4_03904_05227,"root;cellular organisms;kingdom;phylum;class;",o132
join
join
asked Nov 27 '18 at 7:41
Camouf0079Camouf0079
63
asked Nov 27 '18 at 7:41
Camouf0079Camouf0079
63
asked Nov 27 '18 at 7:41
Camouf0079Camouf0079
63
asked Nov 27 '18 at 7:41
Camouf0079Camouf0079
63
asked Nov 27 '18 at 7:41
Camouf0079Camouf0079
63
63
add a comment |
add a comment |
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