#🔒 super simple python help , js neewd like 10 seconds of ur time

50 messages · Page 1 of 1 (latest)

white dawn
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Hey

elder mangoBOT
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@white dawn

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white dawn
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hi

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so someone told me to get

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this thing where it gives u a progress bar

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and i installed it

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then ran

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for x in tqdm.tqdm(somelist)

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acc i didnt run it yet but

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where do i put it

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like

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at the end of my code

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under

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print('done')

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or at the beggining

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or like where

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@ me if anyones got an answer

tame nova
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what

white dawn
tame nova
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can you paste your current code

white dawn
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import pandas as pd
import requests

Read protein names from Excel file

file_path = r'C:\Users\hi\Desktop\2024_07_01_Abreviated final ref_all protein coding genes.xlsx'
df = pd.read_excel(file_path)
protein_names = df['Offical symbol'].unique()

def get_go_annotations(protein_name: str):
l = []
try:
j = requests.get(f"https://rest.uniprot.org/uniprotkb/search?query={protein_name}").json()
for ref in j["results"][0]["uniProtKBCrossReferences"]:
if ref["database"] == "GO" and ref["properties"][0]["value"].split(":")[0] == "F":
l.append(ref["properties"][0]["value"].split(":")[1].split(",")[0])
except Exception as e:
print(f"Error processing {protein_name}: {e}")
return l

Collect all unique GO annotations

all_go_annotations = set()
protein_go_annotations = {}

for protein_name in protein_names:
go_annotations = get_go_annotations(protein_name)
protein_go_annotations[protein_name] = go_annotations
all_go_annotations.update(go_annotations)

all_go_annotations = list(all_go_annotations)

Create the matrix

matrix = pd.DataFrame(0, index=protein_names, columns=all_go_annotations)

for protein_name, go_annotations in protein_go_annotations.items():
for go_annotation in go_annotations:
matrix.at[protein_name, go_annotation] = 1

Save the matrix to a file

matrix.to_csv("go_annotations_matrix.csv")

print("Matrix of GO annotations saved to go_annotations_matrix.csv")
print("done")

elder mangoBOT
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Hey @white dawn!

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gilded oyster
white dawn
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yes

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i wan know where to put it in my code

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to have the bar

tame nova
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you did all that but you cant add a progress bar ok

white dawn
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chill

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i js dont know where to put it

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all i gotta do is

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for x in tqdm.tqdm(somelist)

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right

tame nova
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I think you need to go manual with something like py with tqdm(total=100) as pbar: for i in range(10): sleep(0.1) pbar.update(10) since you have existing loops

gilded oyster
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From what I see in the documentation, we can try this:

from tqdm import tqdm
...
for go_annotation in tqdm(go_annotations):
tame nova
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ah ok

misty needle
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he got muted btw

tame nova
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that is probably better than manual

misty needle
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2enom

tame nova
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why

misty needle
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#python-discussion

tame nova
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oh damn

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well you definetely wantr something like ```py
for protein_name in tqdm(protein_names):

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same thing for all the other for loops

misty needle
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@2emon said thank you

tame nova
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oke

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lol

elder mangoBOT
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