Skip to content

fix error on images #78

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Merged
manulera merged 1 commit into from
Jun 26, 2025
Merged

fix error on images #78

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
2 changes: 1 addition & 1 deletion process_submission.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -36,7 +36,7 @@ def main(submission_folder):
for i, template in enumerate(submission.to_template_list()):
for source in template["sources"]:
if "image" in source and source["image"] is not None:
source["image"] = [source["image"], settings["image_width"]]
source["image"][1] = settings["image_width"]
# Format i as 001, etc.
ii = str(i + 1).zfill(3)
assembly_file_name = f"assembly_template_{ii}.json"
Expand Down
40 changes: 8 additions & 32 deletions processed/browse-article-28244182/templates/assembly_template_001.json
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -66,10 +66,7 @@
"title": "Assembly connector",
"description": null,
"image": [
[
"glyph_1.png",
"60%"
],
"glyph_1.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -358,10 +355,7 @@
"title": "Promoter",
"description": null,
"image": [
[
"glyph_2.png",
"60%"
],
"glyph_2.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -671,10 +665,7 @@
"title": "Coding sequence",
"description": "You can use the ATG from the fusion site as translation start. If possible omit STOP codon and make your protein in frame with the Ser.",
"image": [
[
"glyph_3.png",
"60%"
],
"glyph_3.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -774,10 +765,7 @@
"title": "Terminator",
"description": null,
"image": [
[
"glyph_4.png",
"60%"
],
"glyph_4.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -1045,10 +1033,7 @@
"title": "Assembly connector",
"description": null,
"image": [
[
"glyph_5.png",
"60%"
],
"glyph_5.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -1337,10 +1322,7 @@
"title": "Yeast marker",
"description": null,
"image": [
[
"glyph_6.png",
"60%"
],
"glyph_6.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -1440,10 +1422,7 @@
"title": "Yeast plasmid origin of replication",
"description": null,
"image": [
[
"glyph_7.png",
"60%"
],
"glyph_7.png",
"60%"
],
"options": []
Expand All @@ -1458,10 +1437,7 @@
"title": "Bacterial marker and origin",
"description": null,
"image": [
[
"glyph_8.png",
"60%"
],
"glyph_8.png",
"60%"
],
"options": [
Expand Down
45 changes: 9 additions & 36 deletions processed/browse-article-28244182/templates/assembly_template_002.json
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -72,10 +72,7 @@
"title": "Assembly connector",
"description": null,
"image": [
[
"glyph_1.png",
"60%"
],
"glyph_1.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -364,10 +361,7 @@
"title": "Promoter",
"description": null,
"image": [
[
"glyph_2.png",
"60%"
],
"glyph_2.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -677,10 +671,7 @@
"title": "N-term part",
"description": "You can use the ATG from the fusion site as translation start. Omit STOP codon and make your protein in frame with the Ser for fusion.",
"image": [
[
"glyph_3a.png",
"60%"
],
"glyph_3a.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -780,10 +771,7 @@
"title": "C-term part",
"description": "Left Ser should be in frame with previous CDS. If possible omit STOP codon and make your protein in frame with the right Ser for fusion.",
"image": [
[
"glyph_3b.png",
"60%"
],
"glyph_3b.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -862,10 +850,7 @@
"title": "Terminator",
"description": null,
"image": [
[
"glyph_4.png",
"60%"
],
"glyph_4.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -1133,10 +1118,7 @@
"title": "Assembly connector",
"description": null,
"image": [
[
"glyph_5.png",
"60%"
],
"glyph_5.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -1425,10 +1407,7 @@
"title": "Yeast marker",
"description": null,
"image": [
[
"glyph_6.png",
"60%"
],
"glyph_6.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -1528,10 +1507,7 @@
"title": "Yeast plasmid origin of replication",
"description": null,
"image": [
[
"glyph_7.png",
"60%"
],
"glyph_7.png",
"60%"
],
"options": []
Expand All @@ -1546,10 +1522,7 @@
"title": "Bacterial marker and origin",
"description": null,
"image": [
[
"glyph_8.png",
"60%"
],
"glyph_8.png",
"60%"
],
"options": [
Expand Down
50 changes: 10 additions & 40 deletions processed/browse-article-28244182/templates/assembly_template_003.json
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -78,10 +78,7 @@
"title": "Assembly connector",
"description": null,
"image": [
[
"glyph_1.png",
"60%"
],
"glyph_1.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -370,10 +367,7 @@
"title": "Promoter",
"description": null,
"image": [
[
"glyph_2.png",
"60%"
],
"glyph_2.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -683,10 +677,7 @@
"title": "N-term part",
"description": "You can use the ATG from the fusion site as translation start. Omit STOP codon and make your protein in frame with the Ser for fusion.",
"image": [
[
"glyph_3a.png",
"60%"
],
"glyph_3a.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -786,10 +777,7 @@
"title": "C-term part",
"description": "Left Ser should be in frame with previous CDS. If possible omit STOP codon and make your protein in frame with the right Ser for fusion.",
"image": [
[
"glyph_3b.png",
"60%"
],
"glyph_3b.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -868,10 +856,7 @@
"title": "C-term (extra)",
"description": "Left Ser should be in frame with previous CDS. Warning: You must include a STOP in your CDS!",
"image": [
[
"glyph_4a.png",
"60%"
],
"glyph_4a.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -971,10 +956,7 @@
"title": "Terminator",
"description": null,
"image": [
[
"glyph_4.png",
"60%"
],
"glyph_4.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -1116,10 +1098,7 @@
"title": "Assembly connector",
"description": null,
"image": [
[
"glyph_5.png",
"60%"
],
"glyph_5.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -1408,10 +1387,7 @@
"title": "Yeast marker",
"description": null,
"image": [
[
"glyph_6.png",
"60%"
],
"glyph_6.png",
"60%"
],
"options": [
Expand Down Expand Up @@ -1511,10 +1487,7 @@
"title": "Yeast plasmid origin of replication",
"description": null,
"image": [
[
"glyph_7.png",
"60%"
],
"glyph_7.png",
"60%"
],
"options": []
Expand All @@ -1529,10 +1502,7 @@
"title": "Bacterial marker and origin",
"description": null,
"image": [
[
"glyph_8.png",
"60%"
],
"glyph_8.png",
"60%"
],
"options": [
Expand Down
Loading
Loading