```{r setup, include=FALSE}
knitr::opts_chunk$set(echo = TRUE)
```

Note that for this assignment I will be using notepadd++

## Problem 1

This is the original text

```
First String    Second      1.22      3.4
Second          More Text   1.555555  2.2220
Third           x           3         124

```

and the desired output

```
First String,Second,1.22,3.4
Second,More Text,1.555555,2.2220
Third,x,3,124
```

Working Solution:

```
First I tried \t to find tabs and replace them figuring that would be the most direct approach. However, tabs did not show up when searched so I realized that it was spaces that I needed. I had to differentiate between a single space for inbetween words and more than 1 space that functioned as the tabs. But in so doing I saw that the end space also counted. My solution was to replace the end space return lines with something found nowhere else in the document (@) so i could preserve the return, and then looked for 2 or more consecutive spaces and replaced them with a comma. and then afterwards removed the @ and replaced it with nothing. Summarized below with the result

\r replace with @

\s{2,} replace with ,

find and replace @

Results:

First String,Second,1.22,3.4
Second,More Text,1.555555,2.2220
Third,x,3,124

```

## Problem 2

This is the original text

```
Ballif, Bryan, University of Vermont
Ellison, Aaron, Harvard Forest
Record, Sydne, Bryn Mawr

```

and the desired output

```
Bryan Ballif (University of Vermont)
Aaron Ellison (Harvard Forest)
Sydne Record (Bryn Mawr)

```
Working Solution:

```

what i need it to do is identfy each line separately, then find the first, second, and third word groups 
then swap the second and first and keep the third as is except surround it with parentheses. What I decided to do was treat this as 5 captures.
1. first word
2. first instance of , 
3. second word
4. second instance of , 
5. The rest

which results in (\w+)(\, )(\w+)(\, )(.*)
now all I need to do is regurgitate them in the right order and slide a parenthesis in there thus

the replace
\3 \1 \(\5\)

results:

Bryan Ballif (University of Vermont)
Aaron Ellison (Harvard Forest)
Sydne Record (Bryn Mawr)


```
## Problem 3

This is the original text

```
0001 Georgia Horseshoe.mp3 0002 Billy In The Lowground.mp3 0003 Winder Slide.mp3 0004 Walking Cane.mp3

```

and the desired output

```
0001 Georgia Horseshoe.mp3
0002 Billy In The Lowground.mp3
0003 Winder Slide.mp3
0004 Walking Cane.mp3

```
Working Solution:

```
What I'm thinking is that I need to group each number and song as a unit and then replace them with a return inbetween. so we need to find essentially 4 numbers sequentially, a bunch of words, and a .mp3
BUT what would be easier is finding a characteristic line start and replacing that with a new line. So what I did was have it look for the sequence of 4 numbers, capture that, replace it with a new line which should break up the text by line

thus

search:  (\d{4,})
replace: \n\1 

Results


0001  Georgia Horseshoe.mp3 
0002  Billy In The Lowground.mp3 
0003  Winder Slide.mp3 
0004  Walking Cane.mp3

this does however end up giving us a blank line on top but that is fairly easily removed BUT we can modify the code such that we are searching for 
   (\d{4,})
but only keeping the number sequence

```

## Problem 4

This is the original text

```
0001 Georgia Horseshoe.mp3
0002 Billy In The Lowground.mp3
0003 Winder Slide.mp3
0004 Walking Cane.mp3

```

and the desired output

```
Georgia Horseshoe_0001.mp3
Billy In The Lowground_0002.mp3
Winder Slide_0003.mp3
Walking Cane_0004.mp3

```
Working Solution:

```
 Again we want to grab the numbers so we can use the expression for finding them from the previous problem. What we then want to do is group the song title as its own thing distinctive from the .mp3. fortunately notepad++ seems to be smart enough to know that if part of search is in the previous search to separate them. Lucky! So what we do is capture the number, the title, and the .mp3 and replace them in the changed order with the underscore
 
Search: (\d{4,}) (.*)(.mp3)
replace: \2\_\1\3

Result:
Georgia Horseshoe_0001.mp3
Billy In The Lowground_0002.mp3
Winder Slide_0003.mp3
Walking Cane_0004.mp3


```

## Problem 5

This is the original text

```
Camponotus,pennsylvanicus,10.2,44
Camponotus,herculeanus,10.5,3
Myrmica,punctiventris,12.2,4
Lasius,neoniger,3.3,55

```

and the desired output

```
C_pennsylvanicus,44
C_herculeanus,3
M_punctiventris,4
L_neoniger,55

```
Working Solution:

```

This one is a mixture of grabbing some parts and ignoring others. I broke it down to capture the first letter of the first word, grab whatever word appeared after a comma, find whatever combination of number period number came before another comma, and then capture the remainder. Then combine the first letter, underscore, second word, and last number

Search: (\w)\w+,(\w+),\d*.\d,(.*)
Replace: \1\_\2,\3

Results:

C_pennsylvanicus,44
C_herculeanus,3
M_punctiventris,4
L_neoniger,55


```
## Problem 6

This is the original text

```
Camponotus,pennsylvanicus,10.2,44
Camponotus,herculeanus,10.5,3
Myrmica,punctiventris,12.2,4
Lasius,neoniger,3.3,55

```

and the desired output

```
C_penn,44
C_herc,3
M_punc,4
L_neon,55

```
Working Solution:

```

This only required minor modifications to the original code at least how I had written it. We needed to modify how the expression grabbed the second word and essentially mirror how it treated the first word accept grabbing only the first 4 letters. The trick is making it acknowledge that while we want the first 4 letters there is more word attached to that before the ,. Everything else stays the same

Search: (\w)\w+,(\w{4})\w+,\d*.\d,(.*)
Replace: \1\_\2,\3



```

## Problem 7

This is the original text

```
Camponotus,pennsylvanicus,10.2,44
Camponotus,herculeanus,10.5,3
Myrmica,punctiventris,12.2,4
Lasius,neoniger,3.3,55

```

and the desired output

```
Campen, 44, 10.2
Camher, 3, 10.5
Myrpun, 4, 12.2
Lasneo, 55, 3.3

```
Working Solution:

```

For this we need to build off of some of the previous code. We'll use the same expression to grab the first three letters of the first and second word. the addition is that we now want to capture the collection of numbers that follows these words. But we have written in vaguely enough such that any combination of digits will work. And as before we want to capture the last number. From there it is just a matter of replacing them in the right order. 

Search:(\w{3})\w+,(\w{3})\w+,(\d*.\d),(.*)
Replace:\1\2, \4, \3


Results:

Campen, 44, 10.2
Camher, 3, 10.5
Myrpun, 4, 12.2
Lasneo, 55, 3.3


```

## Problem 8

```

this is the original hideous text that should be put down and the person who dared to release this into the internet without cleaning it first should be tried for their crimes. But I digress


first replace the NAs with nothing since a 0 would be meaningful in the context of this dataset

search: \,NA,
replace: \,\,

then remove all special characters

search: [\!\-\@\#\*\%\^\)\(\+\$\&]
replace:

then catch the trailing space after worker in some instances

search \s,
replace: \,

and lastly remove the errant underscores. The trick here is that we only want to grab underscored that are in the rows not the columns but in notepad++ it is a simple matter of only selecting the area we are interestedin and making sure that the 'in selection' box is checked

search: \_
replace:

Final Output:

id,target_name,pathogen_binary,sampling_date,site_code,field_id,bombus_spp,host_plant,bee_caste,sampling_event,pathogen_load
1,BQCV,1,9/9/2020,BOST,6,impatiens,solidago,worker,4,2414168.805
3,BQCV,,9/10/2020,MUDGE,18,impatiens,crown vetch,worker,4,760793.2324
4,BQCV,,9/10/2020,MUDGE,11,impatiens,crown vetch,worker,4,0
5,BQCV,,9/9/2020,BOST,11,impatiens,solidago,male,4,0
6,BQCV,,9/10/2020,CIND,14,impatiens,knot weed,worker,4,124236.7921
8,BQCV,,9/10/2020,MUDGE,4,impatiens,crown vetch,worker,4,413814.5638
10,BQCV,1,9/10/2020,CIND,13,impatiens,red clover,worker,4,1028831.605
11,BQCV,,7/7/2020,BOST,38,impatiens,red clover,worker,2,307696378.8
12,BQCV,,9/10/2020,MUDGE,5,impatiens,crown vetch,worker,4,0
13,BQCV,1,9/9/2020,BOST,12,impatiens,solidago,male,4,311873.0526
15,BQCV,0,9/9/2020,BOST,18,impatiens,solidago,worker,4,0
16,BQCV,,9/9/2020,BOST,23,impatiens,solidago,male,4,1674951.391
17,BQCV,,9/10/2020,CIND,20,impatiens,red clover,worker,4,3214026.976
18,BQCV,1,9/10/2020,CIND,11,impatiens,birdsfoot,worker,4,995592.63
19,BQCV,,9/10/2020,CIND,17,impatiens,red clover,worker,4,0
20,BQCV,1,9/10/2020,CIND,16,impatiens,red clover,worker,4,200804.8542
21,BQCV,1,9/9/2020,BOST,17,impatiens,solidago,worker,4,228085.8104
22,BQCV,1,9/9/2020,BOST,7,impatiens,solidago,worker,4,7261151.315
23,BQCV,,7/7/2020,COL,22,impatiens,red clover,worker,2,817906.8276
24,BQCV,1,7/7/2020,BOST,45,impatiens,red clover,worker,2,858658.6884

```
