Using sed command to change each letter to the next one in the alphabet

2021-02-22 22:28 bildungsroman11 imported from Stackoverflow

Here is what is the file beast.txt: savage beast tank beauty

I am looking to get it to look like: tbwbhf cfbtu ubol cfbvuz

This what I have but when I run this it changes the letters to "[a-z]+1".

cat beast.txt | sed 's/[a-z]/[a-z]+1/g' > savage.txt

Do I have to use other special characters to in the sed command or should this be done with a loop? Thank you for your help.

2 answers

answered 2021-02-22 22:31 William Pursell

This is not a job for sed:

$ echo 'savage beast tank beauty' | tr a-z b-za
tbwbhf cfbtu ubol cfbvuz

If you really want to use sed, you can do:

$ b2z=bcdefghijklmnopqrstuvwxyz
$ echo 'savage beast tank beauty' | sed -e "y/a$b2z/${b2z}a/"
tbwbhf cfbtu ubol cfbvuz

answered 2021-02-22 23:44 bildungsroman11
I used this '$ echo 'savage beast tank beauty' | tr a-z b-za' and it worked.

I am now having trouble reversing what I just did.

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Name        BG color    category level
ALSACE  #ffff00 1
GROUPEMENT DU BAS-RHIN  #d8d8d8 2
BERNARDSWILLER  #ffffff 3
BISCHOFFSHEIM   #ffffff 3
EBERSHEIM   #ffffff 3
HOCHFELDEN  #ffffff 3
MEISTRATZHEIM   #ffffff 3
NIEDERNAI   #ffffff 3
OBERNAI #ffffff 3
OTTROTT #ffffff 3
SCHIRMECK   #ffffff 3
Vallée de la Bruche #ffffff 3
STRASBOURG  #ffffff 3
AQUITAINE   #ffff00 1
DAX #ffffff 3
SOUSTONS    #ffffff 3
BRETAGNE    #ffff00 1
GROUPEMENT DU FINISTERE #d8d8d8 2
GROUPEMENT LOIRE-ATLANTIQUE #d8d8d8 2
GROUPEMENT DU MORBIHAN  #d8d8d8 2
SECTEUR DE BROCELIANDE  #d8d8d8 2
CARO    #ffffff 3
RUFFIAC #ffffff 3
St MARCEL   #ffffff 3
SECTEUR DU PAYS GALLO   #d8d8d8 2
BILLIO  #ffffff 3
BULEON  #ffffff 3
COLPO   #ffffff 3
ELVEN   #ffffff 3
GUEHENNO    #ffffff 3
LOCMARIA GRAND CHAMP    #ffffff 3
LOQUELTAS   #ffffff 3
MOHON   #ffffff 3
MONTERBLANC #ffffff 3
CONTACT COURRIER TELEPHONE - MONTERBLANC    #ffffff 3
PLAUDREN    #ffffff 3
PLUMELEC    #ffffff 3
SAINT-ALLOUESTRE    #ffffff 3
SAINT-JEAN BREVELAY #ffffff 3
SECTEUR DE LANVAUX  #d8d8d8 2
BRANDIVY    #ffffff 3
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double du courrier de M. LE TUTOUR  #ffffff 3
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PLUMERGAT   #ffffff 3
PLUVIGNER   #ffffff 3
PLUMELIN    #ffffff 3
QUISTINIC   #ffffff 3
SECTEUR DU PAYS D'AURAY #d8d8d8 2
PLUNERET    #ffffff 3
AURAY   #ffffff 3

Error trying to compile C file: mkfifo: cannot create fifo 'stderr': Operation not supported

We are trying to compile this by following instructions in the readme. I must say that we are not specialists with C at all, we are students of a web development bootcamp and trying to do our last project.

It's a command line tool to calculate ephemerides of multiple celestial bodies, and as you can read in the setup in the readme file, it need to download certain data from the internet, and then compile. All is done through the setup.sh script.

So, we have tried:

In Windows 10 ubuntu WSL terminal

If we type $./setup or $./prettymake, after download the data, gives the error:

$mkfifo: cannot create fifo 'stderr': Operation not supported
$mkdir -p obj obj/argparse obj/coreUtils obj/ephemCalc obj/listTools obj/mathsTools obj/settings
cc -Wall -Wno-format-truncation -Wno-unknown-pragmas -g -c -I /mnt/d/reboot/ephemeris-compute-de430/src -O3 -D DEBUG=0 -D MEMDEBUG1=0 -D MEMDEBUG2=0 -fopenmp -D DCFVERSION=\"2.0\"  -D DATE=\"09/06/2019\"  -D PATHLINK=\"/\"  -D SRCDIR=\"/mnt/d/reboot/ephemeris-compute-de430/src/\" src/ephemCalc/constellations.c -o obj/ephemCalc/constellations.o

If we do it with $sudo ./setup, the error printed is:

$mkfifo: cannot create fifo 'stderr': Operation not supported
$cat: stderr: No such file or directory
$mkdir -p obj obj/argparse obj/coreUtils obj/ephemCalc obj/listTools obj/mathsTools obj/settings
cc -Wall -Wno-format-truncation -Wno-unknown-pragmas -g -c -I /mnt/d/reboot/ephemeris-compute-de430/src -O3 -D DEBUG=0 -D MEMDEBUG1=0 -D MEMDEBUG2=0 -fopenmp -D DCFVERSION=\"2.0\"  -D DATE=\"09/06/2019\"  -D PATHLINK=\"/\"  -D SRCDIR=\"/mnt/d/reboot/ephemeris-compute-de430/src/\" src/ephemCalc/constellations.c -o obj/ephemCalc/constellations.o

In macOS terminal

If we type $./prettymake, gives the error:

$mkdir -p obj obj/argparse obj/coreUtils obj/ephemCalc obj/listTools obj/mathsTools obj/settings
cc -Wall -Wno-format-truncation -Wno-unknown-pragmas -g -c -I /Users/rominaelorrietalopez/Documents/Descargas2/ephemeris-compute-de430-master/src -O3 -D DEBUG=0 -D MEMDEBUG1=0 -D MEMDEBUG2=0 -fopenmp -D DCFVERSION=\"2.0\"  -D DATE=\"09/06/2019\"  -D PATHLINK=\"/\"  -D SRCDIR=\"/Users/rominaelorrietalopez/Documents/Descargas2/ephemeris-compute-de430-master/src/\" src/argparse/argparse.c -o obj/argparse/argparse.o
$clang: error: unsupported option '-fopenmp'
$make: *** [obj/argparse/argparse.o] Error 1

We have tried certain things to no avail, like granting permissions and what not, but have no idea what to do next.

It seems that it have something to do with the prettymake file:

mkfifo stderr
cat stderr | sed 's/\(.*\)/\1/' &
make $@ 2>stderr | sed 's/\(.*\)/\1/'
rm stderr

It's like its trying to create a pipe to save the errors of the compilation but somehow it fails. Also possibly worth of mention, it have a Makefile associated.

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$BASH_COMMAND is overwritten too early in Trap DEBUG

I have

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my_script.py is

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parser = ArgumentParser()

parser.add_argument('--command', default="")
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But when I run a bash command the output is

PROMPT_COMMAND='python my_script.py'

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Extract all rows which contain <20 exons in a transcript

The first 3 column contains the genome coordinates 4th column contains transcript name 5th column contains exon name and 6th column contain exon rank. So I want to separate this file into 2 files: 1st files if the transcript contains a total <20 exons then print all exons and another file in which if the transcript contains a total of more than 20 exons then print all exons in a different file.

X   70444861    70445558    ENST00000194900 ENSE00001463308 1
X   70448580    70448633    ENST00000194900 ENSE00001463307 2
X   70448913    70448963    ENST00000194900 ENSE00003643927 3
X   70449359    70449483    ENST00000194900 ENSE00003548284 4
X   70449690    70449859    ENST00000194900 ENSE00003690291 5
X   70450169    70450305    ENST00000194900 ENSE00000436378 6
X   70450639    70450783    ENST00000194900 ENSE00000672250 7
X   70451867    70452026    ENST00000194900 ENSE00003562095 8
X   70453637    70453793    ENST00000194900 ENSE00003664498 9
X   70454214    70454316    ENST00000194900 ENSE00003617252 10
X   70479150    70479264    ENST00000194900 ENSE00003589163 11
X   70492107    70492283    ENST00000194900 ENSE00003626140 12
X   70492521    70492596    ENST00000194900 ENSE00003469450 13
X   70495408    70495453    ENST00000194900 ENSE00003692914 14
X   70497180    70497221    ENST00000194900 ENSE00003595614 15
X   70498520    70498570    ENST00000194900 ENSE00003511316 16
X   70499176    70499277    ENST00000194900 ENSE00003615707 17
X   70499877    70500049    ENST00000194900 ENSE00003483338 18
X   70500471    70500580    ENST00000194900 ENSE00003686632 19
X   70500898    70500989    ENST00000194900 ENSE00003626326 20
X   70502163    70505490    ENST00000194900 ENSE00003733449 21
X   120426148   120431462   ENST00000200639 ENSE00001187748 9
X   120441730   120441894   ENST00000200639 ENSE00000854520 8
X   120442599   120442662   ENST00000200639 ENSE00000374515 7
X   120446305   120446427   ENST00000200639 ENSE00000854522 6
X   120447841   120448025   ENST00000200639 ENSE00000854523 5
X   120448970   120449128   ENST00000200639 ENSE00000854524 4
X   120455357   120455570   ENST00000200639 ENSE00000675764 3
X   120456651   120456769   ENST00000200639 ENSE00003615412 2
X   120469106   120469296   ENST00000200639 ENSE00003896841 1
X   68829021    68829904    ENST00000204961 ENSE00001041113 1
X   68838617    68838894    ENST00000204961 ENSE00000672435 2
X   68839664    68839756    ENST00000204961 ENSE00000672436 3
X   68839960    68840088    ENST00000204961 ENSE00000672437 4
X   68840242    68842160    ENST00000204961 ENSE00001041114 5
X   100843836   100844078   ENST00000217885 ENSE00001857295 12
X   100848630   100848754   ENST00000217885 ENSE00000401023 11
X   100849772   100849934   ENST00000217885 ENSE00000401021 10
X   100850151   100850386   ENST00000217885 ENSE00001661840 9
X   100851233   100851325   ENST00000217885 ENSE00001607924 8
X   100862171   100862303   ENST00000217885 ENSE00001702593 7
X   100862392   100862573   ENST00000217885 ENSE00001701549 6
X   100862669   100862820   ENST00000217885 ENSE00001637130 5
X   100863159   100863243   ENST00000217885 ENSE00001653972 4
X   100863485   100863595   ENST00000217885 ENSE00001767233 3
X   100870719   100870814   ENST00000217885 ENSE00001602753 2
X   100874095   100874209   ENST00000217885 ENSE00001187812 1
X   2913614 2914773 ENST00000217890 ENSE00001203379 7
X   2915556 2915692 ENST00000217890 ENSE00003684272 6
X   2917804 2918227 ENST00000217890 ENSE00003509340 5
X   2920601 2920723 ENST00000217890 ENSE00003691518 4
X   2921903 2922024 ENST00000217890 ENSE00003652714 3
X   2925616 2925765 ENST00000217890 ENSE00003691123 2
X   2929232 2929275 ENST00000217890 ENSE00001881224 1

After the output, the 2 files looks like this:- The first files look like:-

    X  120426148   120431462   ENST00000200639 ENSE00001187748 9
    X   120441730   120441894   ENST00000200639 ENSE00000854520 8
    X   120442599   120442662   ENST00000200639 ENSE00000374515 7
    X   120446305   120446427   ENST00000200639 ENSE00000854522 6
    X   120447841   120448025   ENST00000200639 ENSE00000854523 5
    X   120448970   120449128   ENST00000200639 ENSE00000854524 4
    X   120455357   120455570   ENST00000200639 ENSE00000675764 3
    X   120456651   120456769   ENST00000200639 ENSE00003615412 2
    X   120469106   120469296   ENST00000200639 ENSE00003896841 1
    X   68829021    68829904    ENST00000204961 ENSE00001041113 1
    X   68838617    68838894    ENST00000204961 ENSE00000672435 2
    X   68839664    68839756    ENST00000204961 ENSE00000672436 3
    X   68839960    68840088    ENST00000204961 ENSE00000672437 4
    X   68840242    68842160    ENST00000204961 ENSE00001041114 5
    X   100843836   100844078   ENST00000217885 ENSE00001857295 12
    X   100848630   100848754   ENST00000217885 ENSE00000401023 11
    X   100849772   100849934   ENST00000217885 ENSE00000401021 10
    X   100850151   100850386   ENST00000217885 ENSE00001661840 9
    X   100851233   100851325   ENST00000217885 ENSE00001607924 8
    X   100862171   100862303   ENST00000217885 ENSE00001702593 7
    X   100862392   100862573   ENST00000217885 ENSE00001701549 6
    X   100862669   100862820   ENST00000217885 ENSE00001637130 5
    X   100863159   100863243   ENST00000217885 ENSE00001653972 4
    X   100863485   100863595   ENST00000217885 ENSE00001767233 3
    X   100870719   100870814   ENST00000217885 ENSE00001602753 2
    X   100874095   100874209   ENST00000217885 ENSE00001187812 1
    X   2913614 2914773 ENST00000217890 ENSE00001203379 7
    X   2915556 2915692 ENST00000217890 ENSE00003684272 6
    X   2917804 2918227 ENST00000217890 ENSE00003509340 5
    X   2920601 2920723 ENST00000217890 ENSE00003691518 4
    X   2921903 2922024 ENST00000217890 ENSE00003652714 3
    X   2925616 2925765 ENST00000217890 ENSE00003691123 2
    X   2929232 2929275 ENST00000217890 ENSE00001881224 1

The second files look like this:-

    X   70444861    70445558    ENST00000194900 ENSE00001463308 1
    X   70448580    70448633    ENST00000194900 ENSE00001463307 2
    X   70448913    70448963    ENST00000194900 ENSE00003643927 3
    X   70449359    70449483    ENST00000194900 ENSE00003548284 4
    X   70449690    70449859    ENST00000194900 ENSE00003690291 5
    X   70450169    70450305    ENST00000194900 ENSE00000436378 6
    X   70450639    70450783    ENST00000194900 ENSE00000672250 7
    X   70451867    70452026    ENST00000194900 ENSE00003562095 8
    X   70453637    70453793    ENST00000194900 ENSE00003664498 9
    X   70454214    70454316    ENST00000194900 ENSE00003617252 10
    X   70479150    70479264    ENST00000194900 ENSE00003589163 11
    X   70492107    70492283    ENST00000194900 ENSE00003626140 12
    X   70492521    70492596    ENST00000194900 ENSE00003469450 13
    X   70495408    70495453    ENST00000194900 ENSE00003692914 14
    X   70497180    70497221    ENST00000194900 ENSE00003595614 15
    X   70498520    70498570    ENST00000194900 ENSE00003511316 16
    X   70499176    70499277    ENST00000194900 ENSE00003615707 17
    X   70499877    70500049    ENST00000194900 ENSE00003483338 18
    X   70500471    70500580    ENST00000194900 ENSE00003686632 19
    X   70500898    70500989    ENST00000194900 ENSE00003626326 20
    X   70502163    70505490    ENST00000194900 ENSE00003733449 21

So please can anyone tell me how to make 2 files. Thanks in advance.

SED replace in file
I'm trying to do a simple (I think) search and replace in a file.

Search for the test wrapped between @{...} and replace it with %<...>.

For example:
1. @{SOMETEXT_A} becomes $<SOMETEXT_A>
2. @{SOMETEXT_B} becomes $<SOMETEXT_B>
3. @{SOMETEXT_C} becomes $<SOMETEXT_C>
I have this in sed which matches the search params,
```
sed -i 's/\@{.\*}/\$<.\*>/g' input.txt
```
..but doesn't copy the string to the result and instead results in
```
$<.*>
```
How do I copy over the regex match from ".*" into the replace string?

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How to replace string in a specific line using sed command or awk

I have a text file and it has the following contents

    #                                       
    #   Keywords:                                   
    #                                                                           
    LiFePO4                                     
    end                                     
    name    Li5FeO4                                 
    cell                                        
        18.557309   18.316802   9.125725    90.047539   90.100646   90.060551 0 0 0 0 0 0           
    fractional  1                                   
    Li  core    0.06001     0.059408    0.849507    1   1   0   0   0   0
    Li1 core    0.025416    0.339078    0.128746    1   1   0   0   0   0
    Li2 core    0.02517     0.838929    0.130747    1   1   0   0   0   0
    Li3 core    0.525498    0.339179    0.127632    1   1   0   0   0   0
    Li4 core    0.524753    0.841333    0.129329    1   1   0   0   0   0
    Li5 core    0.179907    0.158182    0.634012    1   1   0   0   0   0
    Li6 core    0.180817    0.666028    0.628327    1   1   0   0   0   0

This is the input that I need to supply to a tool which used in some research application. Now I need to replace the 0 on the first line which starts with Li on the third column from the last. That is, there are four zeros towards the end in each of the lines starting with Li. I need to replace the second zero and so the file will have the the contents as follows:

    #                                       
    #   Keywords:                                   
    #                                                                           
    LiFePO4                                     
    end                                     
    name    Li5FeO4                                 
    cell                                        
        18.557309   18.316802   9.125725    90.047539   90.100646   90.060551 0 0 0 0 0 0           
    fractional  1                                   
    Li  core    0.06001     0.059408    0.849507    1   1   0   1   0   0
    Li1 core    0.025416    0.339078    0.128746    1   1   0   0   0   0
    Li2 core    0.02517     0.838929    0.130747    1   1   0   0   0   0
    Li3 core    0.525498    0.339179    0.127632    1   1   0   0   0   0
    Li4 core    0.524753    0.841333    0.129329    1   1   0   0   0   0
    Li5 core    0.179907    0.158182    0.634012    1   1   0   0   0   0
    Li6 core    0.180817    0.666028    0.628327    1   1   0   0   0   0

I am planning to use this in a shell script so that I can supply the modified file as an input to another program and use it's out put for further processing.

I have tried the following code, but it is not working

sed -E "s/^(([^ ]+ +){3})0 /\1 /" file1

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Using sed command to change each letter to the next one in the alphabet

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